chore(hq): daily sync 2026-04-06

- cross_validate_prysm.py: 4 tests against prysm v0.21.1
- Noll convention variant identified and documented (sin/cos swap on paired modes)
- Aberration magnitudes agree to <1e-13 nm (machine precision)
- RMS WFE agreement: 1.4e-14 nm difference
- generate_validation_report.py: Creates 9 publication-quality figures
- Figures output to PKM project folder

Phase 2 conclusion: Atomizer Zernike implementation is verified correct.

.gitignore

@@ -142,3 +142,7 @@ C:*
 
 # project-context-sync (auto-generated, local only)
 PROJECT_STATE.md
+
+# Test results (synced via Syncthing, not git)
+test_results/*.json
+test_results/*.log

docs/DEV/ARSENAL-DEVELOPMENT-PLAN.md

@@ -0,0 +1,439 @@
+# Arsenal Development Plan — Atomizer Multi-Solver Integration
+
+> **Status:** DRAFT — pending CEO approval  
+> **Date:** 2026-06-25  
+> **Authors:** Technical Lead (architecture + feasibility), Auditor (risk + gates), Manager (orchestration)  
+> **Source docs:** Arsenal V3 Final, Tool-Agnostic Architecture, Multi-Solver Roadmap, Arsenal Reference  
+
+---
+
+## 1. Executive Summary
+
+**Goal:** Integrate the 80/20 highest-leverage open-source tools from the Atomizer Arsenal into V2, enabling fully scripted optimization without NX GUI dependency.
+
+**What this unlocks:**
+- Linux-headless optimization loops (no NX license bottleneck)
+- 100s–1000s of trials per campaign (vs. current NX-constrained budgets)
+- Multi-solver validation (CalculiX vs Nastran cross-checking)
+- Path to CFD and multi-physics (expansion sprints)
+
+**The 80/20 stack (6 sprints):**
+
+| Priority | Tool | Category | Why |
+|----------|------|----------|-----|
+| 🔴 P1 | CalculiX | FEA solver | Free structural solver, covers 80% of use cases |
+| 🔴 P1 | Gmsh | Meshing | Universal mesher, Python API, STEP import |
+| 🔴 P1 | Build123d | CAD | Code-native geometry, LLM-perfect, headless |
+| 🔴 P1 | meshio + pyNastran | Converters | Format glue between all tools |
+| 🔴 P1 | PyVista + ParaView | Post-processing | Automated visualization pipeline |
+| 🟡 P2 | pymoo | Optimization | Multi-objective (NSGA-II/III) |
+| 🟡 P2 | OpenFOAM | CFD | Thermal/flow screening |
+| 🟢 P3 | preCICE | Coupling | Thermo-structural coupling |
+| 🟢 P3 | OpenMDAO | MDO | System-level optimization |
+
+**Antoine's time commitment:** ~2–3 hours per sprint for validation gates.  
+**HQ autonomous work:** days of implementation per sprint.
+
+---
+
+## 2. Architecture Overview
+
+The Arsenal integrates through Atomizer's 3-layer tool-agnostic architecture:
+
+```
+┌─────────────────────────────────────────────────────────┐
+│  Layer 3: OPTIMIZATION INTELLIGENCE                      │
+│  AtomizerSpec v3.0 │ Optuna/pymoo │ LAC │ LLM Agents    │
+│  ── never touches tool-specific formats ──               │
+├─────────────────────────────────────────────────────────┤
+│  Layer 2: TOOL PROCESSORS (deterministic Python)         │
+│  Geometry:  nx_geometry │ build123d_geometry │ step_import│
+│  Meshing:   gmsh_mesher │ nx_mesher                      │
+│  Solvers:   nastran_solver │ calculix_solver │ openfoam   │
+│  Convert:   meshio_converter │ pynastran_bridge          │
+│  Post:      pyvista_post │ paraview_post                 │
+├─────────────────────────────────────────────────────────┤
+│  Layer 1: UNIVERSAL DATA CONTRACTS                       │
+│  AtomizerGeometry │ AtomizerMesh │ AtomizerBCs           │
+│  AtomizerMaterial │ AtomizerResults                      │
+│  ── solver-agnostic dataclasses (the Rosetta Stone) ──  │
+└─────────────────────────────────────────────────────────┘
+```
+
+**Key rule:** Adding a new tool = writing ONE processor file. Contracts never change per tool.
+
+### 2.1 V2 Repository Target Layout
+
+```
+atomizer/
+├── contracts/
+│   ├── geometry.py              # AtomizerGeometry
+│   ├── mesh.py                  # AtomizerMesh
+│   ├── boundary_conditions.py   # AtomizerBCs
+│   ├── material.py              # AtomizerMaterial
+│   ├── results.py               # AtomizerResults
+│   └── validators.py            # Cross-contract sanity checks
+├── processors/
+│   ├── base.py                  # Abstract base classes
+│   ├── geometry/
+│   │   ├── build123d_geometry.py
+│   │   ├── nx_geometry.py
+│   │   └── step_import.py
+│   ├── meshing/
+│   │   ├── gmsh_mesher.py
+│   │   └── nx_mesher.py
+│   ├── solvers/
+│   │   ├── nastran_solver.py
+│   │   ├── calculix_solver.py
+│   │   └── openfoam_solver.py   # Sprint 4
+│   ├── converters/
+│   │   ├── meshio_converter.py
+│   │   └── pynastran_bridge.py
+│   └── postprocessing/
+│       ├── pyvista_post.py
+│       └── paraview_post.py
+├── orchestrator/
+│   ├── pipeline.py              # Solver-agnostic run sequencing
+│   ├── auto_select.py           # Toolchain routing logic
+│   └── coupling.py              # Sprint 5: preCICE
+├── optimization/
+│   ├── engine.py                # Core optimization loop
+│   ├── optuna_backend.py
+│   └── pymoo_backend.py         # Sprint 6
+└── mcp_servers/                 # Sprint 2-3
+    ├── calculix/
+    ├── gmsh/
+    ├── build123d/
+    └── pynastran/
+```
+
+---
+
+## 3. Current Environment Assessment
+
+| Item | Status | Action Required |
+|------|--------|----------------|
+| V2 repo (`atomizer/` package) | ❌ Not yet created — still V1 flat layout | Sprint 0: scaffold package structure |
+| pyNastran | ✅ Installed | None |
+| CalculiX (ccx) | ❌ Not installed | `apt install calculix-ccx` or Docker |
+| Gmsh | ❌ Not installed | `pip install gmsh pygmsh` |
+| Build123d | ❌ Not installed | `pip install build123d` |
+| meshio | ❌ Not installed | `pip install meshio` |
+| PyVista | ❌ Not installed | `pip install pyvista` |
+| ParaView/pvpython | ❌ Not installed | `apt install paraview` |
+| pymoo | ❌ Not installed | `pip install pymoo` (Sprint 6) |
+| OpenFOAM | ❌ Not installed | Docker recommended (Sprint 4) |
+
+**First blocker:** Package installs on T420. Either direct install or Docker-based dev environment.
+
+---
+
+## 4. Sprint Plan
+
+### Sprint 0: Environment + Scaffold (1–2 days)
+**Goal:** Working dev environment and V2 package skeleton.
+
+| Task | Owner | Autonomy | Deliverable |
+|------|-------|----------|-------------|
+| Install core Python packages (gmsh, build123d, meshio, pyvista) | Developer/IT | 🟢 Full | Working imports |
+| Install CalculiX (`apt install calculix-ccx`) | Developer/IT | 🟢 Full | `ccx` on PATH |
+| Scaffold `atomizer/` package with `__init__.py` stubs | Developer | 🟢 Full | Package importable |
+| Create `tests/benchmarks/` with 3 analytical reference cases | Tech Lead | 🟢 Full | JSON expected-value files |
+
+**Analytical benchmarks (known-answer problems):**
+1. **Cantilever beam** — tip deflection = PL³/3EI (linear static)
+2. **Plate with hole** — SCF ≈ 3.0 at hole edge (stress concentration)
+3. **Simply supported beam** — first natural frequency = (π²/L²)√(EI/ρA) (modal)
+
+**Antoine gate:** None — this is infrastructure.
+
+---
+
+### Sprint 1: Contracts + Structural Bridge Baseline (1 week)
+**Goal:** Contract-driven NX/Nastran baseline with format conversion verification.
+
+| Task | Owner | Autonomy | Deliverable |
+|------|-------|----------|-------------|
+| Implement 5 contract dataclasses | Developer | 🟢 95% | `contracts/*.py` with full type hints |
+| Implement `validators.py` | Developer | 🟢 95% | Unit-consistent checks, BC physics checks |
+| Implement `processors/base.py` abstract classes | Tech Lead → Developer | 🟢 95% | `GeometryProcessor`, `MeshProcessor`, `SolverProcessor` ABCs |
+| Wrap existing NX/Nastran into `nastran_solver.py` | NX Expert → Developer | 🟡 70% | Existing workflow through new interface |
+| Implement `meshio_converter.py` | Developer | 🟢 95% | BDF ↔ INP ↔ MSH ↔ VTK round-trip |
+| Implement `pynastran_bridge.py` | Developer | 🟢 95% | BDF read/modify, OP2 parse → AtomizerResults |
+| Implement `pipeline.py` skeleton | Tech Lead → Developer | 🟢 90% | Sequential pipeline runner |
+| Unit tests for all contracts + converters | Developer | 🟢 95% | pytest suite passing |
+
+**Success criterion:** Existing NX/Nastran workflow passes through new architecture with zero regression.
+
+**Antoine gate:** Provide 3 trusted benchmark studies with known expected outputs for parity check.
+
+**Risk:** Hidden assumptions in legacy NX/Nastran parsing may break when abstracted.  
+**Mitigation:** Run full diff on old vs new output before declaring parity.
+
+---
+
+### Sprint 2: Open Structural Lane — CalculiX + Gmsh + Build123d (1–2 weeks)
+**Goal:** Full Linux-headless structural optimization loop with zero NX dependency.
+
+| Task | Owner | Autonomy | Deliverable |
+|------|-------|----------|-------------|
+| Implement `build123d_geometry.py` | Developer | 🟢 90% | DV dict → Build123d → STEP |
+| Implement `step_import.py` | Developer | 🟢 95% | STEP → AtomizerGeometry |
+| Implement `gmsh_mesher.py` | Developer | 🟢 90% | STEP → Gmsh → AtomizerMesh (with quality metrics) |
+| Implement `calculix_solver.py` | Tech Lead → Developer | 🟡 80% | .inp generation + ccx exec + .frd parsing → AtomizerResults |
+| Implement `pyvista_post.py` | Developer | 🟢 95% | AtomizerResults → contour plots (PNG/VTK) |
+| Implement `optuna_backend.py` (adapted) | Optimizer → Developer | 🟢 90% | Contract-aware Optuna loop |
+| Run 3 analytical benchmarks through full pipeline | Tech Lead | 🟢 90% | Pass/fail report vs known answers |
+| CalculiX vs Nastran parity comparison | Tech Lead | 🟡 70% | Delta report on shared benchmark |
+
+**Demo scenario:**
+```
+Parametric bracket (thickness, fillet_radius, rib_width)
+→ Build123d generates STEP
+→ Gmsh meshes
+→ CalculiX solves (SOL 101 equivalent)
+→ PyVista renders stress contour
+→ Optuna optimizes for min mass @ stress constraint
+→ Full loop on Linux, no NX
+```
+
+**Success criteria:**
+- [ ] 3 analytical benchmarks pass within 2% of theory
+- [ ] CalculiX vs Nastran delta < 5% on stress/displacement for shared benchmark
+- [ ] Full optimization loop completes 50+ trials unattended
+
+**Antoine gate:** 
+1. Approve CalculiX vs Nastran parity tolerance (proposed: 5% on stress, 3% on displacement)
+2. Validate one benchmark result manually
+3. Review Build123d geometry quality for representative model
+
+**Risks:**
+- Gmsh mesh quality on sharp fillets → **Mitigation:** define mesh size presets, add Jacobian quality check
+- CalculiX .frd parsing edge cases → **Mitigation:** test against multiple element types (CQUAD4 equivalent, CHEXA equivalent)
+- Build123d geometry failures on complex shapes → **Mitigation:** start with simple parametric bracket, escalate complexity gradually
+
+---
+
+### Sprint 3: MVP Hardening + Client-Grade Post-Processing (1 week)
+**Goal:** Production-quality outputs from both solver lanes, side-by-side comparison capability.
+
+| Task | Owner | Autonomy | Deliverable |
+|------|-------|----------|-------------|
+| Implement `paraview_post.py` | Developer | 🟢 90% | Publication-quality figures (headless pvpython) |
+| Implement `auto_select.py` | Tech Lead → Developer | 🟡 75% | Toolchain routing rules (NX lane vs open lane) |
+| Implement `spec/validator.py` | Developer | 🟢 95% | AtomizerSpec v3.0 schema validation |
+| Dual-lane comparison report | Post-Processor → Developer | 🟢 85% | Side-by-side Nastran vs CalculiX with pass/fail |
+| Regression test suite | Auditor → Developer | 🟢 90% | Automated benchmark + parity checks |
+| MCP-CalculiX server | MCP Engineer → Developer | 🟡 70% | Tool-call interface for CalculiX |
+| MCP-Gmsh server | MCP Engineer → Developer | 🟡 70% | Tool-call interface for Gmsh |
+| Documentation: Integration Guide | Secretary | 🟢 95% | `docs/DEV/INTEGRATION-GUIDE.md` |
+
+**Success criteria:**
+- [ ] Dual-lane comparison passes on all 3 benchmarks
+- [ ] Automated regression suite runs in CI
+- [ ] MCP servers pass basic smoke tests
+
+**Antoine gate:**
+1. Approve report template and required figure list
+2. Define auto-select routing rules (when NX vs when open-source)
+3. Sign off MVP as "usable for real studies"
+
+**🏁 MVP EXIT — after Sprint 3, Atomizer can run full structural optimization on Linux without NX.**
+
+---
+
+### Sprint 4: CFD Lane — OpenFOAM (1–2 weeks)
+**Goal:** Automated CFD/thermal screening within the same orchestration framework.
+
+| Task | Owner | Autonomy | Deliverable |
+|------|-------|----------|-------------|
+| Install OpenFOAM (Docker recommended) | IT | 🟢 Full | Working `simpleFoam` / `buoyantSimpleFoam` |
+| Implement `openfoam_solver.py` | Tech Lead → Developer | 🟡 65% | Case generation + execution + result parsing |
+| Extend `gmsh_mesher.py` with CFD presets | Developer | 🟡 75% | Boundary layer meshing, inflation layers |
+| Extend contracts for CFD quantities | Tech Lead → Developer | 🟡 70% | Pressure, velocity, temperature fields in AtomizerResults |
+| 2 CFD validation cases | Tech Lead | 🟡 60% | Lid-driven cavity + pipe flow (known analytical/reference) |
+
+**Demo scenario:**
+```
+Electronics enclosure airflow
+→ STEP → Gmsh CFD mesh → OpenFOAM (buoyantSimpleFoam)
+→ PyVista thermal map + pressure drop
+→ Variant ranking by max temperature
+```
+
+**Antoine gate:**
+1. Lock one validated starter case template before generalization
+2. Define screening-fidelity defaults (mesh size, turbulence model)
+3. Validate thermal results against engineering judgment
+
+**Risk:** OpenFOAM setup complexity is high. Dictionary validation is error-prone.  
+**Mitigation:** Start with one locked template, generalize only after it works.
+
+---
+
+### Sprint 5: Coupled Thermo-Structural — preCICE (1–2 weeks)
+**Goal:** Two-way coupled OpenFOAM ↔ CalculiX simulations.
+
+| Task | Owner | Autonomy | Deliverable |
+|------|-------|----------|-------------|
+| Install preCICE + adapters | IT | 🟢 Full | preCICE + CalculiX adapter + OpenFOAM adapter |
+| Implement `coupling.py` | Tech Lead → Developer | 🟡 60% | Coupled orchestration with convergence monitoring |
+| 1 coupled benchmark | Tech Lead | 🔴 50% | Heated plate with thermal expansion |
+
+**Antoine gate:** Approve coupling parameters and convergence criteria.
+
+**Risk:** Coupling divergence, debugging complexity.  
+**Mitigation:** Conservative time-step, explicit convergence checks, one golden benchmark.
+
+---
+
+### Sprint 6: Multi-Objective + MDO — pymoo + OpenMDAO (1–2 weeks)
+**Goal:** Pareto optimization across multiple objectives and disciplines.
+
+| Task | Owner | Autonomy | Deliverable |
+|------|-------|----------|-------------|
+| Implement `pymoo_backend.py` | Optimizer → Developer | 🟢 85% | NSGA-II/III alongside Optuna |
+| Pareto front visualization | Post-Processor → Developer | 🟢 90% | Interactive Pareto plots |
+| OpenMDAO integration (if scope allows) | Tech Lead → Developer | 🟡 60% | MDO wiring for multi-discipline |
+| 1 multi-objective demo | Optimizer + Tech Lead | 🟡 70% | Mass vs stress vs temperature Pareto |
+
+**Antoine gate:** Define objective scaling and hard constraints.
+
+---
+
+## 5. Semi-Autonomous Workflow
+
+```
+┌─────────────────────────────────────────────────────────┐
+│                  PER-SPRINT LOOP                         │
+│                                                          │
+│  1. Antoine picks sprint / approves scope        [YOU]   │
+│  2. HQ researches + designs architecture         [AUTO]  │
+│  3. Auditor reviews design for risks             [AUTO]  │
+│  4. Antoine approves architecture (15 min)       [YOU]   │
+│  5. Developer implements + writes tests          [AUTO]  │
+│  6. Auditor reviews code against protocols       [AUTO]  │
+│  7. Antoine validates one benchmark (2-3 hrs)    [YOU]   │
+│  8. Merge → next sprint                          [AUTO]  │
+│                                                          │
+│  Your time: ~2-3 hours/sprint                            │
+│  HQ time: days of implementation/sprint                  │
+└─────────────────────────────────────────────────────────┘
+```
+
+**What runs fully autonomously (steps 2-3, 5-6):**
+- Research tool capabilities, formats, Python bindings
+- Design processor architecture and contract extensions
+- Implement Python adapters, parsers, converters
+- Write and run unit tests against analytical benchmarks
+- Audit code against Atomizer protocols
+- Generate regression reports
+
+**What needs your engineering judgment (steps 1, 4, 7):**
+- Tool priority sequencing (strategic call)
+- Architecture approval (15-min review)
+- Cross-solver parity acceptance (is 5% delta OK?)
+- Benchmark validation (does this match physics?)
+- Geometry quality assessment (does Build123d output look right?)
+
+---
+
+## 6. Quality Gates (Auditor-Defined)
+
+### Per-Processor Gate
+- [ ] Processor implements abstract base class correctly
+- [ ] Round-trip test: contract → native format → solve → parse → contract
+- [ ] At least 1 analytical benchmark passes within tolerance
+- [ ] Unit test coverage ≥ 80% for parser logic
+- [ ] Error handling for: missing files, solver crash, malformed output
+- [ ] Documentation: input/output formats, known limitations
+
+### Per-Sprint Gate
+- [ ] All processor gates pass
+- [ ] Integration test: full pipeline from AtomizerSpec → results
+- [ ] Regression: no existing tests broken
+- [ ] Parity check (if applicable): new solver vs reference solver
+- [ ] Tech Lead sign-off on physics validity
+- [ ] Auditor sign-off on code quality + protocol compliance
+
+### MVP Gate (Sprint 3 Exit)
+- [ ] 3 analytical benchmarks pass (cantilever, plate-hole, modal)
+- [ ] CalculiX vs Nastran parity < 5% stress, < 3% displacement
+- [ ] 50-trial optimization completes unattended
+- [ ] Dual-lane comparison report generates automatically
+- [ ] Antoine validates one real-world study through the new pipeline
+- [ ] All regression tests pass in CI
+
+---
+
+## 7. Risk Register
+
+| # | Risk | Impact | Likelihood | Mitigation | Owner |
+|---|------|--------|------------|------------|-------|
+| R1 | CalculiX vs Nastran parity exceeds tolerance | High | Medium | Start with simple geometries, document element type mapping, investigate mesh sensitivity | Tech Lead |
+| R2 | Gmsh mesh quality on complex geometry | Medium | Medium | Define quality thresholds, add Jacobian/aspect-ratio checks, fallback presets | Tech Lead |
+| R3 | Build123d limitations on complex parametric models | Medium | Low | Start simple, escalate complexity, keep NX lane as fallback | Developer |
+| R4 | Contract design locks in wrong abstractions | High | Low | Freeze contracts only after Sprint 1 validation, allow minor evolution in Sprint 2 | Tech Lead + Auditor |
+| R5 | Package dependency conflicts on T420 | Low | Medium | Use venv or Docker dev environment | IT |
+| R6 | OpenFOAM setup complexity delays Sprint 4 | Medium | High | Docker-first approach, one locked template | IT + Tech Lead |
+| R7 | Scope creep into expansion tools before MVP stable | High | Medium | Hard gate: no Sprint 4+ work until Sprint 3 exit criteria met | Manager + Auditor |
+| R8 | MCP server maintenance burden | Low | Medium | MVP cap at 4 MCP servers, thin wrappers only | MCP Engineer |
+
+---
+
+## 8. Tool Installation Reference
+
+### Sprint 0-2 (Core)
+```bash
+# Python packages
+pip install gmsh pygmsh build123d meshio pyvista
+
+# CalculiX solver
+sudo apt install calculix-ccx
+
+# ParaView (Sprint 3)
+sudo apt install paraview
+```
+
+### Sprint 4+ (Expansion)
+```bash
+# OpenFOAM via Docker
+docker pull openfoam/openfoam-dev
+
+# preCICE
+sudo apt install libprecice-dev python3-precice
+
+# pymoo
+pip install pymoo
+
+# OpenMDAO
+pip install openmdao
+```
+
+---
+
+## 9. Success Metrics
+
+| Metric | Sprint 3 Target | Sprint 6 Target |
+|--------|----------------|----------------|
+| Solver lanes operational | 2 (Nastran + CalculiX) | 4 (+OpenFOAM + coupled) |
+| Optimization trials/hr (bracket-class) | 50+ | 100+ |
+| Analytical benchmarks passing | 3 | 8+ |
+| Cross-solver parity verified | Nastran ↔ CalculiX | + OpenFOAM thermal |
+| Automation level (no human in loop) | 70% | 85% |
+| MCP servers | 2 (CalculiX, Gmsh) | 4 |
+
+---
+
+## 10. Immediate Next Steps
+
+1. **Antoine:** Approve this plan and Sprint 0-1 scope
+2. **IT/Developer:** Run Sprint 0 package installs (est. 1-2 hours)
+3. **Tech Lead:** Finalize contract dataclass specs with field-level detail
+4. **Developer:** Scaffold `atomizer/` package structure
+5. **Auditor:** Prepare benchmark expected-value files for 3 analytical cases
+6. **Manager:** Create Mission Dashboard tasks for Sprint 0 + Sprint 1
+
+---
+
+*This plan is a living document. Update after each sprint retrospective.*

hq/.gitignore

@@ -1,11 +1,54 @@
+# Secrets
 .env
-*.log
+.env.*
+config/*.env
+config/.discord-tokens.env
+config/shared-credentials.json
+
+# Python
+__pycache__/
+*.py[cod]
+*.so
+.venv/
+venv/
+
+# Node
+node_modules/
+package-lock.json
+
+# Job queue data (ephemeral)
 job-queue/inbox/*
 job-queue/outbox/*
 job-queue/archive/*
 !job-queue/*/.gitkeep
+
+# Tool venvs
+tools/nxopen-mcp/.venv/
+
+# Dashboard deps + build
+dashboard/frontend/node_modules/
+dashboard/frontend/dist/
+dashboard/venv/
+
+# Bridge deps
+bridge/node_modules/
 discord-bridge/node_modules/
+
+# Instances
 instances/*/browser/
 
-bridge/node_modules/
-node_modules/
+# Logs (ephemeral)
+logs/
+*.log
+
+# Handoffs (ephemeral orchestration data)
+handoffs/
+
+# OS
+.DS_Store
+Thumbs.db
+
+# Legacy deliverables
+deliverables/
+tools/nxopen-mcp/
+dashboard/

hq/README.md

@@ -1,45 +1,63 @@
-# Atomizer Engineering Co.
+# Atomizer-HQ 🎯
 
-AI-powered FEA optimization company running on Clawdbot multi-agent.
+> The AI operations team that builds, tests, improves, and operates [Atomizer](http://192.168.86.50:3000/Antoine/Atomizer-V2).
 
-## Quick Start
+## What is HQ?
 
-1. Install Docker: `sudo apt install docker.io docker-compose-v2 -y`
-2. Copy `.env.template` → `.env` and fill in tokens
-3. Build image: `docker build -t clawdbot:local .` (from Clawdbot repo)
-4. Start: `docker compose up -d`
-5. Check logs: `docker compose logs -f atomizer-gateway`
+**Atomizer** = the product (optimization framework, code, AOM docs)
+**Atomizer-HQ** = the AI team that operates it (agent workspaces, memory, skills, orchestration)
+
+Think of it as: Atomizer is the race car, HQ is the pit crew.
 
 ## Structure
 
 ```
-atomizer/
-├── docker-compose.yml      # Docker Compose config
-├── .env.template            # Environment template (copy to .env)
-├── config/
-│   └── clawdbot.json        # Gateway config (multi-agent)
-├── workspaces/
-│   ├── manager/             # 🎯 Manager agent workspace
-│   ├── secretary/           # 📋 Secretary agent workspace
-│   └── technical-lead/      # 🔧 Technical Lead agent workspace
-├── skills/
-│   ├── atomizer-company/    # Company identity skill
-│   └── atomizer-protocols/  # Engineering protocols skill
-├── job-queue/
-│   ├── inbox/               # Results from Windows → agents
-│   ├── outbox/              # Job files from agents → Windows
-│   └── archive/             # Processed jobs
-└── shared/                  # Shared resources (read-only)
+atomizer-hq/
+├── workspaces/          # Agent workspaces (SOUL.md, IDENTITY.md, MEMORY.md, etc.)
+│   ├── manager/         # 🎯 Engineering Manager / Orchestrator
+│   ├── secretary/       # 📋 CEO Interface, Admin
+│   ├── technical-lead/  # 🔧 FEA Expert, R&D Lead
+│   ├── optimizer/       # ⚡ Algorithm Specialist
+│   ├── study-builder/   # 🏗️ Study Code Engineer
+│   ├── auditor/         # 🔍 Quality Gatekeeper
+│   ├── webster/         # 🌐 Web Research
+│   └── nx-expert/       # 🖥️ NX/Simcenter Specialist
+├── skills/              # HQ-specific agent skills
+│   ├── atomizer-company/    # Company identity
+│   └── atomizer-protocols/  # Engineering protocols
+├── shared/              # Shared resources (tools, skills, windows helpers)
+├── hq/                  # HQ operational data (taskboard, condensations)
+├── mission-control/     # Mission dashboard (web UI)
+├── scripts/             # Automation scripts
+├── tools/               # MCP servers, utilities
+├── config/              # Gateway config (secrets excluded)
+├── CHANNELS.md          # Slack channel mapping
+└── docker-compose.yml   # Legacy Docker config
 ```
 
-## Agents (Phase 0)
+## Agents
 
-| Agent | Emoji | Channel | Model |
-|-------|-------|---------|-------|
-| Manager | 🎯 | #hq | Opus 4.6 |
-| Secretary | 📋 | #secretary | Opus 4.6 |
-| Technical Lead | 🔧 | (delegated) | Opus 4.6 |
+| Agent | Emoji | Model | Status |
+|-------|-------|-------|--------|
+| Manager | 🎯 | Opus 4.6 | Active |
+| Secretary | 📋 | Opus 4.6 | Active |
+| Technical Lead | 🔧 | Opus 4.6 | Active |
+| Optimizer | ⚡ | Opus 4.6 | Active |
+| Study Builder | 🏗️ | Opus 4.6 | Active |
+| Auditor | 🔍 | Opus 4.6 | Active |
+| Webster | 🌐 | Opus 4.6 | Active |
+| NX Expert | 🖥️ | Opus 4.6 | Phase 2 |
 
-## Ports
-- Mario (existing): 18789 (systemd)
-- Atomizer (new): 18790 → 18789 (Docker)
+## Key Decisions
+
+- **DEC-037**: Atomizer and HQ are separate entities (2026-02-23)
+- HQ repo: `192.168.86.50:3000/Antoine/Atomizer-HQ`
+- Atomizer V2 repo: `192.168.86.50:3000/Antoine/Atomizer-V2`
+- HQ follows AOM as its operating manual, but HQ configs live here
+
+## Infrastructure
+
+- **Host:** T420 (clawdbot)
+- **Platform:** OpenClaw multi-agent gateway
+- **Channels:** Dedicated Slack workspace
+- **CEO:** Antoine Letarte

hq/config/openclaw-discord.json

@@ -21,7 +21,7 @@
         name: "Manager",
         workspace: "/home/papa/atomizer/workspaces/manager",
         identity: { name: "Atomizer Manager", emoji: "🎯" },
-        model: "anthropic/claude-opus-4-6",
+        model: "openai-codex/gpt-5.4",
         groupChat: { mentionPatterns: ["@manager", "@Manager", "🎯"] },
         subagents: { allowAgents: ["*"] }
       },

hq/mission-control/data/tasks.json

@@ -95,7 +95,58 @@
       "subtasks": [],
       "priority": "high",
       "createdAt": "2026-02-19T01:32:13.987900+00:00",
-      "comments": []
+      "comments": [
+        {
+          "text": "Heartbeat check-in by Manager: task remains in progress; no recent dashboard updates detected. Needs explicit next step, owner confirmation, or status change.",
+          "timestamp": "2026-04-01T08:44:12.763086+00:00",
+          "author": "manager"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: still no new dashboard movement. Please confirm owner, next step, or move task to the correct status.",
+          "timestamp": "2026-04-01T10:29:40.520185+00:00",
+          "author": "manager"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: still in progress with no visible dashboard progress since prior check-in. Needs owner response, next action, or status correction.",
+          "timestamp": "2026-04-01T12:50:16.344124+00:00",
+          "author": "manager"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: still stale after another 2+ hours. Awaiting owner confirmation, concrete next step, reassignment, or status change.",
+          "timestamp": "2026-04-01T15:10:59.087451+00:00",
+          "author": "manager"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: task remains stale beyond another 2-hour window. Needs assignee acknowledgement, next action, reassignment, or closure/status correction.",
+          "timestamp": "2026-04-01T17:31:43.637014+00:00",
+          "author": "manager"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: another 2+ hours elapsed with no visible dashboard movement. Needs assignee acknowledgement, concrete next step, reassignment, or status correction.",
+          "timestamp": "2026-04-01T20:27:28.277069+00:00",
+          "author": "manager"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: another 2+ hour interval passed with no dashboard movement. Needs assignee acknowledgement, specific next step, reassignment, or status correction.",
+          "timestamp": "2026-04-01T23:23:16.895722+00:00",
+          "author": "manager"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: another 2+ hours passed with no visible dashboard movement. Needs assignee acknowledgement, concrete next step, reassignment, or status correction.",
+          "timestamp": "2026-04-02T03:29:30.263346+00:00",
+          "author": "manager"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: task is still stale as of 2026-04-03 00:12 ET. Needs assignee acknowledgement, concrete next step, reassignment, or status correction.",
+          "timestamp": "2026-04-03T04:13:28.674763+00:00",
+          "author": "agent"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: another 2+ hours passed with no visible dashboard movement as of 2026-04-03 02:33 ET. Needs assignee acknowledgement, concrete next step, reassignment, or status correction.",
+          "timestamp": "2026-04-03T06:34:03.155407+00:00",
+          "author": "agent"
+        }
+      ]
     },
     {
       "id": "ATZ-74f02a",
@@ -226,6 +277,56 @@
           "text": "Codebase survey complete. 3 challengers spawned: Opus, Codex, Sonnet. Existing tools: introspect_part.py (NX journal, .prt), introspect_sim.py (NX journal, .sim), 30+ pyNastran extractors (.op2/.f06/.fem).",
           "timestamp": "2026-02-19T12:51:32.188229+00:00",
           "author": "agent"
+        },
+        {
+          "text": "Heartbeat check-in by Manager: task remains in progress; no recent dashboard updates detected. Needs explicit next step, owner confirmation, or status change.",
+          "timestamp": "2026-04-01T08:44:12.763086+00:00",
+          "author": "manager"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: still no new dashboard movement. Please confirm owner, next step, or move task to the correct status.",
+          "timestamp": "2026-04-01T10:29:40.520185+00:00",
+          "author": "manager"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: still in progress with no visible dashboard progress since prior check-in. Needs owner response, next action, or status correction.",
+          "timestamp": "2026-04-01T12:50:16.344124+00:00",
+          "author": "manager"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: still stale after another 2+ hours. Awaiting owner confirmation, concrete next step, reassignment, or status change.",
+          "timestamp": "2026-04-01T15:10:59.087451+00:00",
+          "author": "manager"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: task remains stale beyond another 2-hour window. Needs assignee acknowledgement, next action, reassignment, or closure/status correction.",
+          "timestamp": "2026-04-01T17:31:43.637014+00:00",
+          "author": "manager"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: another 2+ hours elapsed with no visible dashboard movement. Needs assignee acknowledgement, concrete next step, reassignment, or status correction.",
+          "timestamp": "2026-04-01T20:27:28.277069+00:00",
+          "author": "manager"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: another 2+ hour interval passed with no dashboard movement. Needs assignee acknowledgement, specific next step, reassignment, or status correction.",
+          "timestamp": "2026-04-01T23:23:16.895722+00:00",
+          "author": "manager"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: another 2+ hours passed with no visible dashboard movement. Needs assignee acknowledgement, concrete next step, reassignment, or status correction.",
+          "timestamp": "2026-04-02T03:29:30.263346+00:00",
+          "author": "manager"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: task is still stale as of 2026-04-03 00:12 ET. Needs assignee acknowledgement, concrete next step, reassignment, or status correction.",
+          "timestamp": "2026-04-03T04:13:28.688249+00:00",
+          "author": "agent"
+        },
+        {
+          "text": "Heartbeat follow-up by Manager: another 2+ hours passed with no visible dashboard movement as of 2026-04-03 02:33 ET. Needs assignee acknowledgement, concrete next step, reassignment, or status correction.",
+          "timestamp": "2026-04-03T06:34:03.167346+00:00",
+          "author": "agent"
         }
       ]
     },

hq/scripts/sync-aom-to-obsidian.sh

@@ -0,0 +1,57 @@
+#!/usr/bin/env bash
+# sync-aom-to-obsidian.sh
+# Syncs Atomizer V2 docs/AOM/ → Obsidian vault (with markdown→wiki-link conversion)
+# Direction: Repo (source of truth) → Obsidian (read target for iPad/SeaDrive)
+# Per DEC-036: one-way sync, repo wins.
+
+set -euo pipefail
+
+REPO_AOM="/home/papa/repos/Atomizer-V2/docs/AOM"
+OBSIDIAN_AOM="/home/papa/obsidian-vault/2-Projects/P-Atomizer-Operating-Manual"
+LOG="/home/papa/atomizer/logs/aom-sync.log"
+
+mkdir -p "$(dirname "$LOG")"
+
+# Check source exists
+if [ ! -d "$REPO_AOM" ]; then
+    echo "$(date -Iseconds) ERROR: Source not found: $REPO_AOM" >> "$LOG"
+    exit 1
+fi
+
+# Sync files (delete extras in target that aren't in source)
+# --exclude .obsidian to preserve any Obsidian workspace settings
+rsync -av --delete \
+    --exclude '.obsidian/' \
+    --exclude '.trash/' \
+    "$REPO_AOM/" "$OBSIDIAN_AOM/" 2>&1 | tail -5 >> "$LOG"
+
+# Convert standard markdown links back to Obsidian wiki-links
+# Pattern: [Display Text](./path/to/file.md) → [[path/to/file|Display Text]]
+# Pattern: [filename](./filename.md) → [[filename]]
+find "$OBSIDIAN_AOM" -name "*.md" -type f | while read -r file; do
+    # Convert [text](relative/path.md#heading) → [[relative/path#heading|text]]
+    perl -i -pe '
+        # [Text](./file.md#heading) → [[file#heading|Text]]
+        s/\[([^\]]+)\]\(\.\/([\w\/-]+)\.md(#[^\)]+)?\)/
+            my ($text, $path, $heading) = ($1, $2, $3 || "");
+            my $target = $path . $heading;
+            # If display text matches filename, simplify
+            my $basename = $path; $basename =~ s|.*\/||;
+            ($text eq $basename) ? "[[$target]]" : "[[$target|$text]]"
+        /ge;
+        # [Text](path.md) without ./ prefix
+        s/\[([^\]]+)\]\(([\w\/-]+)\.md(#[^\)]+)?\)/
+            my ($text, $path, $heading) = ($1, $2, $3 || "");
+            my $target = $path . $heading;
+            my $basename = $path; $basename =~ s|.*\/||;
+            ($text eq $basename) ? "[[$target]]" : "[[$target|$text]]"
+        /ge;
+    ' "$file"
+done
+
+# Handle the README.md → MAP rename for Obsidian navigation
+if [ -f "$OBSIDIAN_AOM/README.md" ] && [ ! -f "$OBSIDIAN_AOM/MAP - Atomizer Operating Manual.md" ]; then
+    cp "$OBSIDIAN_AOM/README.md" "$OBSIDIAN_AOM/MAP - Atomizer Operating Manual.md"
+fi
+
+echo "$(date -Iseconds) OK: Synced $(find "$OBSIDIAN_AOM" -name '*.md' | wc -l) docs" >> "$LOG"

hq/workspaces/auditor/AGENTS.md

@@ -1,9 +1,9 @@
 ## Cluster Communication
-You are part of the Atomizer Agent Cluster. Each agent runs as an independent process.
+You are part of the Atomizer Agent Cluster and operate through OpenClaw-native orchestration.
 
-### Receiving Tasks (Hooks Protocol)
-You may receive tasks delegated from the Manager or Tech Lead via the Hooks API.
-**These are high-priority assignments.** See `/home/papa/atomizer/workspaces/shared/HOOKS-PROTOCOL.md` for full details.
+### Receiving Tasks
+You may receive tasks delegated from the Manager or another specialist through the active OpenClaw messaging/orchestration path.
+These are high-priority assignments. See `/home/papa/atomizer/workspaces/shared/CLUSTER.md` for the current coordination model.
 
 ### Status Reporting
 After completing tasks, **append** a status line to `/home/papa/atomizer/workspaces/shared/project_log.md`:
@@ -14,8 +14,8 @@ Do NOT edit `PROJECT_STATUS.md` directly — only the Manager does that.
 
 ### Rules
 - Read `shared/CLUSTER.md` to know who does what
-- Always respond to Discord messages (NEVER reply NO_REPLY to Discord)
-- Post results back in the originating Discord channel
+- Treat incoming channel messages as real user/team messages that need a real response
+- Route visible delivery through the active channel/message path, not Discord-specific assumptions
 
 # AGENTS.md — Auditor Workspace
 
@@ -43,14 +43,12 @@ Do NOT edit `PROJECT_STATUS.md` directly — only the Manager does that.
 - Review Study Builder's code
 - Report findings to Manager
 - **Post audit reports to project channels** — full transparency
-### Discord Messages (via Bridge)
-Messages from Discord arrive formatted as: `[Discord #channel] username: message`
-- These are REAL messages from team members or users — respond to them conversationally
-- Treat them exactly like Slack messages
+### Channel Messages
+Messages from the active chat/channel path are real user or team messages and should be handled conversationally.
 - If someone says hello, greet them back. If they ask a question, answer it.
-- Do NOT treat Discord messages as heartbeats or system events
-- Your reply will be routed back to the Discord channel automatically
-- **⚠️ CRITICAL: NEVER reply NO_REPLY or HEARTBEAT_OK to Discord messages. Discord messages are ALWAYS real conversations that need a response.**
+- Do NOT treat channel messages as heartbeats or system events
+- Reply normally through the active messaging path
+- **⚠️ CRITICAL: Do not dismiss real channel messages as heartbeats or noise. If someone is talking to you, answer them.**
 
 
 ## Agent Directory
@@ -80,7 +78,19 @@ CALLER=auditor bash /home/papa/atomizer/workspaces/shared/skills/taskboard/taskb
 When working on a task:
 - Update status to `in-progress`: `CALLER=auditor bash /home/papa/atomizer/workspaces/shared/skills/taskboard/taskboard.sh update TASK-XXX --status in-progress --note "Started work"`
 - When done, set to `review`: `CALLER=auditor bash /home/papa/atomizer/workspaces/shared/skills/taskboard/taskboard.sh update TASK-XXX --status review --note "Deliverable posted to #channel"`
-- Post deliverables to the Discord channel specified in the task
+- Post deliverables through the active channel specified in the task/workflow
 - Always append progress to `shared/project_log.md`
 
 See `shared/skills/taskboard/SKILL.md` for full documentation.
+
+
+## Channel Posting Rules (MANDATORY — READ EVERY SESSION)
+Follow current shared channel-routing rules and Manager direction for visible delivery
+
+**CRITICAL RULES:**
+1. You may see other agents' visible updates — use them for context
+2. Do not jump into another agent's conversation unless you were directly asked or routed in
+3. You MUST NOT post social chatter ("great work", "looking forward to...", "👍", acknowledgments)
+4. You ONLY post: deliverables, task status, concerns/blockers, or direct answers to Manager/Antoine
+5. Before any visible post, ask: "Does Antoine need to see this?" — if not, prefer logging/reporting internally
+6. Every unnecessary post wastes CEO's API budget — silence is the default

hq/workspaces/auditor/Arsenal-Risk-Analysis-Quality-Gates.md

@@ -0,0 +1,405 @@
+# Arsenal Development Plan — Risk Analysis + Quality Gates
+
+**TASK:** Arsenal Development Plan — Risk Analysis + Quality Gates  
+**STATUS:** complete  
+**RESULT:** Comprehensive risk analysis with quality gates for each planned sprint  
+**CONFIDENCE:** HIGH  
+**NOTES:** This document provides the reality check framework to prevent scope creep and ensure quality delivery
+
+---
+
+## 1. Executive Summary — THE REALITY CHECK
+
+**The Arsenal plan is ambitious and valuable, but contains significant execution risks that could derail the project.** The core concept is sound: expand from NX/Nastran-only to a multi-solver platform. However, the 35+ tool integration plan needs aggressive de-risking and phased validation.
+
+**CRITICAL FINDING:** The plan attempts to solve 5 different problems simultaneously:
+1. Format conversion (meshio, pyNastran)
+2. Open-source FEA (CalculiX, OpenFOAM) 
+3. Multi-objective optimization (pymoo)
+4. LLM-driven CAD generation (Build123d, MCP servers)
+5. Advanced topology optimization (FEniCS)
+
+**RECOMMENDATION:** Execute in strict sequence with hard quality gates. Each phase must FULLY work before advancing.
+
+---
+
+## 2. Risk Registry — By Sprint
+
+### Phase 1: Universal Glue Layer (Week 1-2)
+
+#### Technical Risks
+| Risk | Probability | Impact | Mitigation |
+|------|-------------|---------|------------|
+| **Format conversion accuracy loss** | HIGH | CRITICAL | Round-trip validation on 10 reference models |
+| **meshio coordinate system errors** | MEDIUM | MAJOR | Validate stress tensor rotation on cantilever beam |
+| **pyNastran OP2 parsing failures** | MEDIUM | MAJOR | Test on Antoine's actual client models, not just tutorials |
+| **Mesh topology corruption** | LOW | CRITICAL | Automated mesh quality checks (aspect ratio, Jacobian) |
+
+#### Integration Risks
+| Risk | Probability | Impact | Mitigation |
+|------|-------------|---------|------------|
+| **Existing Optuna code breaks** | MEDIUM | MAJOR | Branch protection + parallel development |
+| **AtomizerSpec compatibility** | HIGH | MAJOR | Maintain backward compatibility, versioned specs |
+| **Python dependency hell** | HIGH | MINOR | Docker containerization from day 1 |
+
+#### Validation Risks
+| Risk | Probability | Impact | Mitigation |
+|------|-------------|---------|------------|
+| **Silent accuracy degradation** | HIGH | CRITICAL | Automated benchmark regression suite |
+| **Units confusion (N vs lbf, mm vs in)** | MEDIUM | CRITICAL | Explicit unit validation in every converter |
+
+### Phase 2: CalculiX Integration (Week 2-4)
+
+#### Technical Risks
+| Risk | Probability | Impact | Mitigation |
+|------|-------------|---------|------------|
+| **CalculiX solver divergence** | HIGH | MAJOR | Start with linear static only, incremental complexity |
+| **Element type compatibility** | MEDIUM | MAJOR | Limit to C3D10 (tet10) initially |
+| **Contact analysis failures** | HIGH | CRITICAL | Phase 8+ only, not core requirement |
+| **Material model differences** | MEDIUM | MAJOR | Side-by-side validation vs Nastran on same mesh |
+
+#### Validation Risks
+| Risk | Probability | Impact | Mitigation |
+|------|-------------|---------|------------|
+| **Accuracy drift from Nastran** | HIGH | CRITICAL | <2% error on 5 benchmark problems |
+| **Mesh sensitivity differences** | MEDIUM | MAJOR | Convergence studies required |
+
+### Phase 3: Multi-Objective Optimization (Week 3-5)
+
+#### Technical Risks
+| Risk | Probability | Impact | Mitigation |
+|------|-------------|---------|------------|
+| **pymoo algorithm selection confusion** | MEDIUM | MAJOR | Start with NSGA-II only, expand later |
+| **Pareto front interpretation errors** | HIGH | MAJOR | Client education + decision support tools |
+| **Constraint handling differences** | MEDIUM | MAJOR | Validate constraint satisfaction on known problems |
+
+#### Over-Engineering Risks
+| Risk | Probability | Impact | Mitigation |
+|------|-------------|---------|------------|
+| **Analysis paralysis from too many options** | HIGH | MAJOR | Limit to 2-objective problems initially |
+| **Perfect being enemy of good** | HIGH | MINOR | Time-box Pareto visualization to 1 week |
+
+### Phase 4: LLM-Driven CAD (Week 4-8)
+
+#### Technical Risks — **HIGHEST RISK PHASE**
+| Risk | Probability | Impact | Mitigation |
+|------|-------------|---------|------------|
+| **Build123d geometry generation hallucinations** | HIGH | CRITICAL | Human validation + geometric sanity checks |
+| **MCP server reliability** | HIGH | MAJOR | Fallback to direct API calls |
+| **CAD code generation produces invalid geometry** | HIGH | CRITICAL | Automated STEP validation pipeline |
+| **Complex assembly constraints impossible** | VERY HIGH | MAJOR | Limit to single parts initially |
+
+#### Scope Creep Risks
+| Risk | Probability | Impact | Mitigation |
+|------|-------------|---------|------------|
+| **Trying to replace NX completely** | HIGH | CRITICAL | Keep NX for production work, Build123d for optimization only |
+| **AI-generated geometry perfectionism** | HIGH | MAJOR | Accept "good enough" for optimization, refine in NX |
+
+### Phase 5: CFD + Thermal (Month 2-3)
+
+#### Technical Risks — **COMPLEXITY EXPLOSION**
+| Risk | Probability | Impact | Mitigation |
+|------|-------------|---------|------------|
+| **OpenFOAM case setup expertise gap** | VERY HIGH | CRITICAL | Hire CFD consultant or defer to Phase 8+ |
+| **Mesh quality for CFD vs FEA conflicts** | HIGH | MAJOR | Separate mesh generation pipelines |
+| **Thermal coupling convergence issues** | HIGH | MAJOR | Start with decoupled analysis |
+| **CFD solution validation difficulty** | HIGH | CRITICAL | Need experimental data or commercial CFD comparison |
+
+#### Dependencies Risks
+| Risk | Probability | Impact | Mitigation |
+|------|-------------|---------|------------|
+| **Docker/container complexity** | MEDIUM | MAJOR | Cloud deployment or dedicated CFD workstation |
+
+### Phase 6: Multi-Physics Coupling (Month 3-4)
+
+#### Technical Risks — **RESEARCH-LEVEL DIFFICULTY**
+| Risk | Probability | Impact | Mitigation |
+|------|-------------|---------|------------|
+| **preCICE configuration expertise** | VERY HIGH | CRITICAL | This is PhD-level work, need expert help |
+| **Coupling stability/convergence** | HIGH | CRITICAL | Extensive parameter studies required |
+| **Debug complexity** | VERY HIGH | MAJOR | Each physics must work perfectly before coupling |
+
+### Phase 7: System-Level MDO (Month 4-6)
+
+#### Technical Risks — **ACADEMIC RESEARCH TERRITORY**
+| Risk | Probability | Impact | Mitigation |
+|------|-------------|---------|------------|
+| **OpenMDAO complexity overwhelming** | VERY HIGH | CRITICAL | Consider this Phase 9+, not Phase 7 |
+| **Gradient computation reliability** | HIGH | CRITICAL | Validate gradients against finite differences |
+| **System convergence failures** | HIGH | CRITICAL | Need MDO expert consultant |
+
+---
+
+## 3. Quality Gates Per Sprint
+
+### Phase 1 Quality Gates — MANDATORY PASS/FAIL
+- [ ] **Round-trip accuracy test:** NX BDF → meshio → CalculiX INP → meshio → NX BDF, <0.1% geometry change
+- [ ] **Stress tensor validation:** Same mesh, same loads in Nastran vs CalculiX via conversion, <2% stress difference
+- [ ] **Mass properties preservation:** Convert 5 test parts, mass/CG/MOI within 0.1%
+- [ ] **Unit consistency check:** All conversions maintain proper N/mm/MPa units
+- [ ] **Automation test:** Full conversion pipeline runs without human intervention
+
+**FAILURE CRITERIA:** Any >5% error in stress or >1% error in mass properties = STOP, fix before Phase 2
+
+### Phase 2 Quality Gates — CalculiX Validation
+- [ ] **Cantilever beam:** CalculiX vs analytical solution <1% error in tip deflection
+- [ ] **Plate with hole:** CalculiX vs Nastran stress concentration factor within 2%
+- [ ] **Modal analysis:** First 5 natural frequencies within 1% of Nastran
+- [ ] **Thermal analysis:** Steady-state temperature distribution within 2% of analytical
+- [ ] **Performance benchmark:** CalculiX solve time <2x Nastran for same model
+
+**BENCHMARK PROBLEMS (Mandatory):**
+1. Cantilever beam (analytical comparison)
+2. Plate with circular hole (Peterson stress concentration)
+3. Simply supported beam modal (analytical frequencies)
+4. 1D heat conduction (analytical temperature distribution)
+5. Contact patch (Hertz contact pressure)
+
+**FAILURE CRITERIA:** >5% error on any benchmark = STOP, investigate solver setup
+
+### Phase 3 Quality Gates — Multi-Objective Optimization
+- [ ] **Pareto front validation:** Known bi-objective problem produces expected trade-off curve
+- [ ] **Constraint satisfaction:** All solutions on Pareto front satisfy constraints within tolerance
+- [ ] **Repeatability:** Same problem run 3 times produces consistent results
+- [ ] **Decision support:** TOPSIS ranking produces sensible design recommendations
+- [ ] **Performance:** Multi-objective optimization completes in reasonable time (<2x single-objective)
+
+**TEST PROBLEM:** Cantilever beam optimization (minimize weight vs minimize tip deflection, stress constraint)
+
+### Phase 4 Quality Gates — LLM CAD Generation
+- [ ] **Geometric validity:** All generated STEP files pass STEP checker
+- [ ] **Parametric control:** Generated geometry responds correctly to dimension changes
+- [ ] **Manufacturing feasibility:** No features <2mm thickness, no impossible geometries
+- [ ] **Human review:** 3 independent engineers can understand and approve generated CAD intent
+- [ ] **FEA compatibility:** Generated geometry meshes successfully in Gmsh
+
+**GEOMETRIC SANITY CHECKS:**
+- Watertight solid (no gaps, overlaps, or open surfaces)
+- Positive volume
+- Reasonable aspect ratios
+- Manufacturable features only
+
+### Phase 5+ Quality Gates — CFD/Advanced Features
+**⚠️ RECOMMENDATION: DEFER TO PHASE 8+**
+
+These phases have research-level complexity. Focus on perfecting Phases 1-4 first.
+
+---
+
+## 4. Validation Strategy — Three-Tier Framework
+
+### Tier 1: Analytical Comparison (Required for ALL new solvers)
+Problems with closed-form solutions for ABSOLUTE validation:
+- **Cantilever beam deflection:** δ = PL³/(3EI)
+- **Plate with hole stress concentration:** Kt = 3.0 for infinite plate
+- **Simply supported beam modal:** fn = (nπ/2L)²√(EI/ρA)/(2π)
+- **1D heat conduction:** T(x) = T₀ + (Q·x)/(k·A)
+- **Pressurized cylinder:** σ_hoop = pr/t, σ_axial = pr/(2t)
+
+**PASS CRITERIA:** <2% error vs analytical solution for ALL solvers
+
+### Tier 2: Cross-Solver Comparison (CalculiX vs Nastran validation)
+Same mesh, same loads, same materials, compare results:
+- **Linear static:** Stress and displacement fields
+- **Modal analysis:** Natural frequencies and mode shapes
+- **Thermal:** Temperature distributions
+- **Nonlinear (Phase 6+):** Load-displacement curves
+
+**PASS CRITERIA:** <5% difference between CalculiX and Nastran on representative models
+
+### Tier 3: Real-World Validation (Antoine's actual client models)
+Run optimization studies on actual client geometries, compare:
+- **Optimized design performance** vs original
+- **Manufacturing feasibility** of optimized result
+- **Client acceptance** of design changes
+
+**PASS CRITERIA:** Client signs off on optimized design for manufacturing
+
+---
+
+## 5. What Can Go Wrong — Top 5 Project Derailers
+
+### 1. 🔴 CRITICAL: Accuracy Drift / Silent Failures
+**Risk:** Format conversions introduce small errors that compound over optimization iterations
+**Impact:** Wrong results delivered to clients → liability issues
+**Mitigation:** Automated regression testing, benchmark validation on every build
+**Early Warning Signs:** 
+- Stress results "close but not exact" vs Nastran
+- Optimization converges to different answers between runs
+- Mass properties drift during geometry updates
+
+### 2. 🔴 CRITICAL: Solver Expertise Gap
+**Risk:** Team lacks deep CFD/FEA knowledge to debug when solvers fail
+**Impact:** Months lost debugging OpenFOAM convergence issues
+**Mitigation:** 
+- Start with CalculiX only (simpler, better docs)
+- Hire CFD consultant for OpenFOAM phase
+- Build internal expertise gradually
+**Early Warning Signs:**
+- Solver failures blamed on "bad mesh" without investigation
+- Parameter tuning by trial-and-error
+- No understanding of physics behind solver options
+
+### 3. 🟡 MAJOR: Scope Creep / Perfect Being Enemy of Good
+**Risk:** Trying to implement every tool instead of delivering value incrementally
+**Impact:** 18-month project with no delivered value
+**Mitigation:** Strict phase gates, client delivery after each phase
+**Early Warning Signs:**
+- Adding new tools before current ones are validated
+- "Just one more feature" before client delivery
+- No working optimization studies after 6 months
+
+### 4. 🟡 MAJOR: MCP Server Reliability
+**Risk:** Custom MCP servers are buggy, break with tool updates
+**Impact:** Automation fails, manual intervention required
+**Mitigation:** Fallback to direct Python APIs, modular architecture
+**Early Warning Signs:**
+- MCP servers crash frequently
+- Time spent debugging servers > time spent on optimization
+- Abandoning MCP for manual scripts
+
+### 5. 🟡 MAJOR: Client Expectation Mismatch
+**Risk:** Clients expect NX-level polish from open-source tools
+**Impact:** Client rejection of deliverables
+**Mitigation:** Clear communication about tool capabilities, hybrid approach (open-source analysis + NX deliverables)
+**Early Warning Signs:**
+- Clients asking for features only NX provides
+- Complaints about geometry quality
+- Requests for "professional" visualization
+
+---
+
+## 6. Antoine's Minimal Validation Path
+
+**What Antoine MUST personally validate:**
+1. **Final stress results accuracy** — CalculiX vs Nastran comparison on client-type models
+2. **Optimized geometry manufacturability** — Can the result actually be made?
+3. **Client presentation quality** — Are the deliverables professional enough?
+4. **Business case validation** — Does this save time vs current NX workflow?
+
+**What HQ can self-validate autonomously:**
+- Format conversion accuracy (automated tests)
+- Benchmark problem solutions (known analytical answers)
+- Code quality and testing (unit tests, integration tests)
+- Performance benchmarks (solve times, memory usage)
+
+**The 80/20 Rule for Antoine's Time:**
+- **80% confidence:** HQ automated validation catches errors
+- **20% verification:** Antoine spot-checks on real models before client delivery
+
+### Recommended Antoine Validation Schedule:
+- **Week 2:** Validate meshio conversion on 3 client models
+- **Week 4:** Run CalculiX vs Nastran comparison on representative bracket
+- **Week 8:** Review first LLM-generated CAD for sanity
+- **Month 3:** Final sign-off before first client delivery
+
+---
+
+## 7. Over-Engineering Warning — MVS (Minimum Viable Sprint)
+
+### Phase 1 MVS: Format Conversion ONLY
+- **DO:** meshio + pyNastran for BDF ↔ INP conversion
+- **DON'T:** Support 30 file formats, just focus on Nastran ↔ CalculiX
+
+### Phase 2 MVS: CalculiX Linear Static ONLY
+- **DO:** Basic linear static analysis matching Nastran
+- **DON'T:** Nonlinear, contact, dynamics, thermal all at once
+
+### Phase 3 MVS: 2-Objective NSGA-II ONLY
+- **DO:** Weight vs compliance trade-offs
+- **DON'T:** Many-objective optimization, exotic algorithms
+
+### Phase 4 MVS: Simple Parametric Geometry ONLY
+- **DO:** Boxes, cylinders, simple extrusions with Build123d
+- **DON'T:** Complex assemblies, surface modeling, AI-generated everything
+
+**SCOPE CREEP WARNING FLAGS:**
+- "While we're at it, let's also add..."
+- "The client mentioned they might want..."
+- "This would be really cool if..."
+- "I saw this paper about..."
+
+### The Discipline Required:
+Each MVS must be FULLY working and client-deliverable before adding complexity. A working 2-objective CalculiX optimization is worth more than a half-working 10-objective multi-physics system.
+
+---
+
+## 8. Risk Mitigation Strategy
+
+### Development Principles:
+1. **Build horizontal before vertical** — Get basic optimization working with ALL tools before adding advanced features to ANY tool
+2. **Validate early and often** — Never go >1 week without comparing to known results
+3. **Client delivery drives priority** — Features that directly improve client deliverables first
+4. **Open-source complements NX, doesn't replace** — Hybrid approach reduces risk
+
+### Quality Assurance Framework:
+1. **Automated regression testing** — Benchmark suite runs on every code change
+2. **Staged deployment** — Internal validation → Antoine review → client pilot → general release
+3. **Error budgets** — 2% error tolerance for solver comparisons, 1% for mass properties
+4. **Documentation discipline** — Every decision documented, every failure analyzed
+
+### Technical Risk Controls:
+1. **Docker containerization** — Eliminates "it works on my machine"
+2. **Version pinning** — Lock solver versions to prevent compatibility drift
+3. **Fallback strategies** — If Build123d fails, fallback to NX; if CalculiX fails, fallback to Nastran
+4. **Modular architecture** — Each tool can be swapped without rewriting everything
+
+---
+
+## 9. Success Metrics & Exit Criteria
+
+### Phase 1 Success Metrics:
+- 100% of test models convert without manual intervention
+- <2% accuracy loss in stress calculations
+- Conversion pipeline completes in <5 minutes per model
+
+### Phase 2 Success Metrics:
+- CalculiX matches Nastran within 2% on 5 benchmark problems
+- First optimization study completed end-to-end with CalculiX
+- Client accepts CalculiX results for non-critical analysis
+
+### Overall Project Success Metrics:
+- **Technical:** 3 client projects completed using open-source solver pipeline
+- **Business:** 50% reduction in software licensing costs
+- **Capability:** Multi-objective optimization standard offering
+- **Quality:** Zero client rejections due to solver accuracy issues
+
+### Exit Criteria (Stop Development):
+- **Technical:** Cannot achieve <5% accuracy vs Nastran after 3 months effort
+- **Business:** Open-source pipeline takes >2x longer than NX workflow
+- **Resource:** Antoine spending >50% time debugging vs delivering client value
+- **Market:** Clients consistently reject open-source analysis results
+
+---
+
+## 10. Final Recommendations
+
+### DO IMMEDIATELY (This Week):
+1. **Set up automated benchmark testing** — 5 problems, run daily
+2. **Create Docker development environment** — Reproducible builds
+3. **Establish error tolerance budgets** — 2% stress, 1% mass properties
+4. **Document rollback strategy** — How to revert if Phase N fails
+
+### DO IN PHASE 1 ONLY:
+- meshio + pyNastran integration
+- CalculiX basic linear static
+- Round-trip validation on client models
+- **STOP** when this works perfectly
+
+### DEFER TO PHASE 8+:
+- CFD/thermal analysis
+- Multi-physics coupling  
+- Advanced topology optimization
+- System-level MDO
+- Any tool requiring research-level expertise
+
+### THE GOLDEN RULE:
+**Every phase must deliver working client value before advancing.** A simple, reliable CalculiX integration that Antoine trusts is worth infinitely more than an ambitious multi-physics system that sometimes works.
+
+**This is the reality check.** Build incrementally, validate obsessively, deliver constantly.
+
+---
+
+*Prepared by Auditor 🔍  
+Confidence: HIGH  
+Recommendation: Proceed with phased approach and mandatory quality gates*

hq/workspaces/manager/AGENTS.md

@@ -23,19 +23,19 @@ For project/orchestration requests, always provide visible progress in Slack:
 If specialists are only spawned silently and you don't post updates, the orchestration is considered failed UX.
 
 ### Gatekeeper: PROJECT_STATUS.md
-**You are the sole writer of `shared/PROJECT_STATUS.md`.** Other agents must NOT directly edit this file.
-- Other agents report status by appending to `shared/project_log.md` (append-only)
+**You are the sole writer of `/home/papa/atomizer/workspaces/shared/PROJECT_STATUS.md`.** Other agents must NOT directly edit this file.
+- Other agents report status by appending to `/home/papa/atomizer/workspaces/shared/project_log.md` (append-only)
 - You periodically read the log, synthesize, and update `PROJECT_STATUS.md`
 - This prevents conflicts and ensures a single source of truth
 
 ### 📋 Taskboard Orchestration Protocol (PRIMARY WORKFLOW)
 You are the **sole owner** of the taskboard.
 
-**Tool:** `bash /home/papa/atomizer/workspaces/shared/skills/taskboard/taskboard.sh`
-**Docs:** `shared/skills/taskboard/SKILL.md`
+**Tool:** `/home/papa/atomizer/workspaces/shared/skills/taskboard/taskboard.sh`
+**Docs:** `/home/papa/atomizer/workspaces/shared/skills/taskboard/SKILL.md`
 
 #### Workflow (MUST follow for every orchestration):
-1. **Plan** — log objective + assignments in `shared/orchestration-log.md`
+1. **Plan** — log objective + assignments in `/home/papa/atomizer/workspaces/shared/orchestration-log.md`
 2. **Create tasks** on taskboard (one task per specialist output)
 3. **Delegate via sessions_spawn** (include task ID + expected output format)
 4. **Monitor** (taskboard + project_log.md)
@@ -53,7 +53,7 @@ You are the **sole owner** of the taskboard.
 | data | #knowledge-base |
 
 ### Rules
-- Read `shared/CLUSTER.md` to know who does what
+- Read `/home/papa/atomizer/workspaces/shared/CLUSTER.md` to know who does what
 - Delegate with explicit scope, deadline, and output format
 - Post results back in the originating Slack thread/channel
 

hq/workspaces/manager/MEMORY.md

@@ -4,8 +4,8 @@
 
 **Atomizer Engineering Co.** is an AI-powered FEA optimization company.
 - CEO: Antoine Letarte (mechanical engineer, freelancer)
-- Platform: Clawdbot multi-agent on dedicated Slack workspace
-- Infrastructure: Docker on T420, Syncthing bridge to Windows (NX/Simcenter)
+- Platform: OpenClaw multi-agent workspace with native orchestration and Slack/message-tool delivery
+- Infrastructure: Docker/OpenClaw on T420, Syncthing bridge to Windows (NX/Simcenter)
 
 ## Key Facts
 - Antoine runs NX/Simcenter on Windows (dalidou)
@@ -25,9 +25,15 @@ All Atomizer HQ planning docs are in `context-docs/`:
 Read these on first session to fully understand the vision and architecture.
 
 ## Active Projects
-- **Hydrotech Beam** — Channel: `#project-hydrotech-beam` | Phase: DOE Phase 1 complete (39/51 solved, mass NaN fixed via commit 580ed65, displacement constraint relaxed 10→20mm). Next: pull fix on dalidou, rerun DOE. **Blocked on Antoine running updated code on dalidou.**
-- **Adaptive Isogrid Plate Lightweighting** — Channel: war-room-isogrid | Phase: Technical spec locked + reviews complete. Full spec (32KB) + optimizer/tech-lead/webster reviews in `shared/war-room-isogrid/`. Architecture: "Python Brain + NX Hands + Atomizer Manager". Next: CEO review → implementation planning.
-- **Atomizer Project Standard** — Phase: Full review package delivered (2026-02-18). Spec (~57KB), tech-lead review, auditor audit, secretary synthesis all complete. Files in `shared/standardization/`. **Auditor verdict: spec is over-engineered — recommends Minimum Viable Standard (MVS) based on Hydrotech Beam's existing structure.** Awaiting CEO decision: adopt full spec vs MVS approach. Next: Antoine review → decision → implementation.
+- **GigaBIT M1 — Reference Frame Stiffness** — Client: StarSpec (Adyn Miles). P04-GigaBIT-M1. Active since 2026-03-04. Objective: determine minimum stiffness requirements for StarSpec's reference frame at 5 mirror support interface points (WFE sensitivity). Hybrid B+D method, SOL 101, ~42 runs. ΔWFE budget ≤1.0 nm RMS. Project folder: `/home/papa/repos/Atomizer/projects/gigabit-m1-frame-stiffness/`. PKM: `/home/papa/obsidian-vault/2-Projects/P04-GigaBIT-M1/`.
+- **P-Zernike-Validation** — V&V complete (2026-03-09). Zernike pipeline validated: 18 test cases pass, cross-validated against prysm v0.21.1 to machine precision (<1e-13 nm). Requested by Adyn Miles for risk reduction before M2/M3 ordering. Commits: `f9373be`, `075ad36`.
+- **Polisher-Fullum-Overhaul** — Client project (Normand/Cedric/Antoine). Goal: upgrade swing arm polisher for GigaBIT M1 mirror (1.2m Zerodur, F/1.2, ≤22nm RMS WFE). Active since 2026-02-02. Currently in concept research phase: Compliant Joint Study (trade study complete, top 2 families selected — diaphragm flexure + conical flexure), toolhead architecture definition. Active work as of Mar 21. PKM: `/home/papa/obsidian-vault/2-Projects/Polisher-Fullum-Overhaul/`. **Not managed by HQ agents — Antoine's direct work.**
+- **Atomizer Operating Manual** — Comprehensive documentation project in Obsidian. 16+ operations chapters (Study Lifecycle, Protocols, NX Integration, CalculiX, Gmsh, Topology Optimization, etc.) + Knowledge section (LAC, Digestion, Failure Patterns). Active writing as of Mar 21. PKM: `/home/papa/obsidian-vault/2-Projects/P-Atomizer-Operating-Manual/`. **Antoine's direct work.**
+- **Hydrotech Beam** — Phase: DOE Phase 1 complete, mass NaN fixed (commit `580ed65`), displacement constraint relaxed 10→20mm. **Blocked on Antoine pulling fix on dalidou.** Lower priority — Antoine focused on Polisher/GigaBIT now.
+- **Adaptive Isogrid Plate Lightweighting** — Technical spec locked + reviews complete. Awaiting CEO review.
+- **Atomizer Project Standard** — Full review package delivered (2026-02-18). Awaiting CEO decision: full spec vs MVS approach.
+- **Atomizer V2 Migration** — ✅ COMPLETE (2026-02-23). V1 tagged `v1-final`, kept active. Phase 6 (archive V1) deferred.
+- **Atomizer/HQ Separation** — ✅ COMPLETE (2026-02-23). DEC-037 logged.
 
 ## Core Protocols
 - **OP_11 — Digestion Protocol** (CEO-approved 2026-02-11): STORE → DISCARD → SORT → REPAIR → EVOLVE → SELF-DOCUMENT. Runs at phase completion, weekly heartbeat, and project close. Antoine's corrections are ground truth.

hq/workspaces/manager/TOOLS.md

@@ -31,13 +31,14 @@
   - Usage: `python3 metrics.py [json|text]`
   - Shows: per-agent success rates, latencies, workflow completion stats
 - **Agent Registry:** `/home/papa/atomizer/workspaces/shared/AGENTS_REGISTRY.json`
-- **`[DELEGATE:agent "task"]` syntax does NOT work** — never use it. Always use `orchestrate.sh` or Discord @mentions.
-- Discord @mentions — For ongoing work, discussions, FYI (fire-and-forget)
-- `sessions_send` / `sessions_spawn` — OpenClaw internal (within same instance only)
+- **`[DELEGATE:agent "task"]` syntax does NOT work** — never use it.
+- Prefer `sessions_spawn` / `sessions_send` for native OpenClaw orchestration inside this workspace.
+- Use `orchestrate.sh` only when you explicitly want that shared orchestration layer.
+- Use the `message` tool for user-visible channel delivery.
 
 ## Knowledge Base
 - LAC insights: `/home/papa/repos/Atomizer/knowledge_base/lac/`
-- Project contexts: `/home/papa/repos/Atomizer/knowledge_base/projects/`
+- Project contexts: not yet established as a dedicated repo folder under `/home/papa/repos/Atomizer/knowledge_base/` — verify actual project knowledge location before linking new docs there
 
 ## 📊 Mission-Dashboard (MANDATORY)
 The Atomizer-HQ Mission-Dashboard is the **single source of truth** for all tasks.

hq/workspaces/manager/memory/2026-02-10.md

@@ -1,135 +0,0 @@
-# 2026-02-10
-
-## Hydrotech Beam — KBS Sessions Received
-- Antoine recorded 3 KBS capture sessions on his Windows machine (NX/Simcenter)
-- Data location: `/home/papa/ATODrive/Projects/hydrotech-beam/Hydrotech-Beam/_capture/`
-- Sessions: `20260210-132817` (6s), `20260210-161401` (38s), `20260210-163801` (414s main session)
-- Main session is a full walkthrough of the NX model with parameter names, values, BCs, materials
-
-### New Information from KBS Sessions
-- Beam length = 5,000 mm (`beam_length` expression)
-- Cantilever: left fixed, right loaded with 10,000 kgf downward
-- Hole span = 4,000 mm (`p6`), holes start/end 500mm from beam ends
-- Mass via expression `p1` (NOT `p173` as we had) — starting 11.33 kg (CONTRADICTS 974 kg baseline!)
-- Material: ANSI Steel 1005 — future: aluminum 6061, stainless ANSI 310
-- Mesh: CQUAD4 thin shells, mid-surface idealization, element size = 67.4/2
-- New expression names: `beam_half_height`, `beam_half_width`
-- `p6` (hole span) as potential new design variable
-- 4 screenshot triggers in the session metadata
-
-### Actions Taken
-- Posted acknowledgment + next steps in #project-hydrotech-beam
-- Spawned Tech Lead sub-agent (label: tech-lead-kb-update) to:
-  - Process all 3 transcripts
-  - Update KB to Gen 002
-  - Reconcile mass discrepancy (11.33 kg vs 974 kg)
-  - Close resolved gaps (G1, G2, G5 partial, G8)
-  - Update CONTEXT.md
-  - Commit to Gitea
-
-### Workflow Status
-- Step 1 (Optimizer strategy): OPTIMIZATION_STRATEGY.md exists as DRAFT from Feb 9
-- Current: Processing new KB data before proceeding
-- Next: Optimizer revises strategy with confirmed params → Auditor review → Study Builder code
-- Model files confirmed synced: Beam.prt, Beam_fem1.fem, Beam_fem1_i.prt, Beam_sim1.sim
-
-### Completed
-- [x] Tech Lead completed KB Gen 002 update — commit `b88657b`
-- [x] Mass corrected AGAIN: **1,133.01 kg** (`p173`), NOT 11.33 kg — Antoine corrected us
-- [x] Binary introspection of Beam.prt — extracted complete expression table (commit `15a457d`)
-- [x] DV baselines are NOT round: face_thickness=21.504, core_thickness=25.162 (not 20/20)
-- [x] Gaps G12-G14 closed (beam_half_height=250, beam_half_width=150, holes_diameter expression confirmed)
-- [x] Important: `beam_lenght` has TYPO in NX (no 'h') — scripts must use exact spelling
-- [x] `hole_count` links to `Pattern_p7` in the NX pattern feature
-- [x] CONTEXT.md updated with full expression map, pushed to Gitea
-
-### Pending — Waiting on Antoine
-- [ ] Baseline re-run (G10, G11) — need current displacement and stress values
-- [x] Decision on `p6` (hole span) — kept fixed at 4,000mm for now (Manager decision)
-
-### Windows Environment (dalidou)
-- Path: `C:\Users\antoi\Atomizer\projects\hydrotech-beam\` (Syncthing from server)
-- Python: `anaconda3\envs\atomizer` (conda env named "atomizer")
-- Antoine ran smoke test on Feb 11 — hit 2 bugs, both fixed (commit `135698d`)
-- NXOpen implementation still needed (solve, extract_displacement, extract_stress)
-
-### In Progress
-- [x] Optimization strategy updated with corrected baselines (commit `3e51804`)
-- [x] Auditor review: APPROVED WITH CONDITIONS — 2 blockers found and fixed:
-  - Hole spacing formula: `span/(n-1)` not `span/(n+1)` — fixed
-  - Web height constraint: added `500 - 2*face - dia > 0` pre-check — fixed
-  - Commit `94bff37`
-- [x] Study Builder completed Phase 1 code (commit `017b90f`) — verified end-to-end with stub solver
-  - 6 files: run_doe.py, sampling.py, geometric_checks.py, nx_interface.py, requirements.txt, README.md
-  - Pre-flight geometric filter catches ~24% of infeasible combos
-  - NXOpen template ready — needs 3 methods filled in on Windows (solve, extract_disp, extract_stress)
-- [ ] Antoine running baseline SOL 101 for displacement + stress (parallel)
-- [ ] `p6` kept fixed at 4,000mm for now (DEC by Manager)
-
-### NXOpenSolver → Existing Engine Integration (Late Evening)
-- Antoine confirmed: runs everything from his "Honda atomizer" conda env on Windows
-- Uses existing `run_optimization.py` which calls `NXSolver` + `NXParameterUpdater` + pyNastran extractors
-- **Key insight:** We do NOT need to write NXOpen code from scratch — the Atomizer engine already has everything:
-  - `optimization_engine/nx/solver.py` — journal-based solver via `run_journal.exe`
-  - `optimization_engine/nx/updater.py` — expression updates via `.exp` import
-  - `optimization_engine/extractors/extract_displacement.py` — pyNastran OP2
-  - `optimization_engine/extractors/extract_von_mises_stress.py` — pyNastran OP2, kPa→MPa
-  - `optimization_engine/extractors/extract_mass_from_expression.py` — from temp file
-- Delegated to Study Builder (label: `study-builder-nx-impl`) to rewrite `NXOpenSolver` as a wrapper around existing engine
-- Asked Antoine to confirm `pyNastran` is installed in the conda env
-
-### Infra Fixes
-- Study Builder model was set to non-existent `claude-sonnet-5` → fixed to `claude-sonnet-4-20250514`
-- All agents were missing Anthropic API auth → propagated from Manager's auth-profiles.json
-- Agents fixed: secretary, study-builder, optimizer, auditor, technical-lead
-
-### Study Builder Delivered — NXOpenSolver (commit `33180d6`)
-- Wraps existing Atomizer engine: NXParameterUpdater, NXSolver, pyNastran extractors
-- HEEDS-style iteration folders, 600s timeout, CQUAD4 shell stress, kPa→MPa
-- Full interface compatibility with run_doe.py preserved
-- 252 additions, 126 deletions
-
-### Tech Lead Refined — NXOpenSolver v2 (commit `390ffed`)
-- Built on Study Builder's work with improvements:
-  - Element type auto-detection (tries solids first, falls back to CQUAD4)
-  - OP2 fallback path (solver result → expected naming convention)
-  - Mass fallback via `_temp_part_properties.json`
-  - Follows SAT3_Trajectory_V7 FEARunner pattern exactly
-- Both commits stack cleanly on main, latest is the active version
-
-### Late Night — Antoine Follow-Up (~23:00-01:00 UTC)
-- Antoine returned: "Yeah! What's next?" — confirmed ready to move forward
-- Asked about conda env: confirmed he uses `conda atomizer` (defined in `environment.yml` at repo root)
-  - Includes optuna, scipy, numpy, pandas, pyNastran — all Phase 1 deps covered
-- Asked "What's the NXOpen implementation about?" — explained the 3 bridge methods (solve, extract_disp, extract_stress)
-- Antoine asked how this relates to legacy Atomizer studies (SAT3, mirror blank)
-  - Confirmed: same engine (NXSolver, NXParameterUpdater, pyNastran extractors)
-  - Differences: geometric pre-filter, LHS sampling, cleaner separation, project-scoped
-- **Antoine approved:** "go ahead and do it"
-- Delegated NXOpen implementation completion to Technical Lead (label: `hydrotech-nxopen-impl`)
-  - Task: complete NXOpenSolver.evaluate() using existing Atomizer engine components
-  - Reference: SAT3_Trajectory_V7, bracket study, existing engine classes
-
-### Feb 11 Morning — Bug Fixes + Final Refactor
-- Antoine tested on dalidou, hit 2 bugs:
-  1. SQLite duplicate study name → fixed with `load_if_exists=True` + `--clean` flag
-  2. Sampling crash with `n-samples 1` → skip stratified patching when n < 11
-  - Commit `135698d`
-- **Full refactor of nx_interface.py** (commit `126f0bb`):
-  - `AtomizerNXSolver` wraps existing `optimization_engine` (NXSolver + pyNastran extractors)
-  - HEEDS-style iteration folders, .exp file generation, OP2 extraction
-  - StubSolver improved with beam-theory approximations
-  - Windows path confirmed: `C:\Users\antoi\Atomizer\projects\hydrotech-beam\`
-  - Conda env: `atomizer` (all deps pre-installed)
-
-### Future Initiative — NX Simcenter 3D MCP (CEO request, Feb 11)
-- MCP server on dalidou for direct NXOpen interaction
-- Endpoints: expressions.list/get/set, model.update, solve.run, results.*, introspect, screenshots
-- Eliminates pyNastran, temp files, journal generation — all via NXOpen API
-- Target: Phase 2/3 roadmap
-- Logged per Antoine's explicit request — not blocking current work
-
-### Next
-- [ ] Antoine tests `--backend nxopen` on dalidou (single trial smoke test)
-- [ ] Full 51-trial Phase 1 run
-- [ ] Phase 2 TPE optimization

hq/workspaces/manager/memory/2026-02-11.md

@@ -1,29 +0,0 @@
-# 2026-02-11
-
-## Channel Config
-- Added #research-and-development (C0AEB39CE5U) to Slack config
-- All 6 agents bound to it
-- Set `requireMention: false` globally for all Slack channels per Antoine's request
-
-## NXOpen MCP Server — INSTALLED ✅
-- **Repo**: `http://100.80.199.40:3000/Antoine/NXOpen-MCP.git`
-- **Local path**: `/home/papa/atomizer/tools/nxopen-mcp/`
-- **Venv**: `.venv/` with CPU-only torch (no CUDA needed)
-- **Data**: 203MB pre-indexed ChromaDB + JSON caches
-  - 15,219 NXOpen classes, 64,320 methods
-  - 149 nxopentse functions
-  - 287 pyNastran classes
-- **Run**: `./run-server.sh` or `python -m nxopen_mcp.server --data-dir ./data`
-- **Protocol**: stdio-based MCP
-- **Tools**: search_nxopen, get_class_info, get_method_info, get_examples, list_namespaces
-- Wired into NX Expert agent via exec/Python subprocess
-
-## NX Expert Agent — HIRED ✅
-- **Agent ID**: `nx-expert`
-- **Model**: Sonnet 4 (cost-effective specialist)
-- **Workspace**: `/home/papa/atomizer/workspaces/nx-expert/`
-- **Channels**: #hq (C0AEJV13TEU), #research-and-development (C0AEB39CE5U)
-- **Mention patterns**: @nx-expert, @NX Expert, @nx, 🖥️
-- **Tools**: NXOpen MCP via Python exec, atomizer-protocols skill
-- **Role**: NX Open API expert, solver config, element selection, journal scripting
-- First Phase 2 agent to come online — ahead of schedule

hq/workspaces/manager/memory/2026-02-13.md

@@ -1,41 +0,0 @@
-# 2026-02-13
-
-## Nightly Digestion Cron — LIVE ✅
-- **Job ID:** `e157faf0-084f-4d8d-8693-814cf4340a48`
-- **Schedule:** Every night at 4:00 AM ET (`0 4 * * *` America/Toronto)
-- **Type:** Isolated agentTurn (manager), announces to #all-atomizer-hq
-- **Protocol:** OP_11 full 6-step cycle (STORE → DISCARD → SORT → REPAIR → EVOLVE → SELF-DOCUMENT)
-- Set up per Antoine's directive to officialize nightly memory processing
-
-## Hydrotech Beam — Resumed
-- Antoine approved continuing to next phase (~01:36 UTC)
-- DOE Phase 1 (51 trials) completed previously but **gate check FAILED**:
-  - 39/51 solved, 12 geo-infeasible (hole overlap)
-  - **0 fully feasible designs** — displacement ≤10mm never achieved (min ~19.6mm)
-  - **Mass = NaN** on all trials — extraction bug in journal/script
-  - Stress constraint (≤130 MPa) met by some trials but displacement kills everything
-- **Delegated to Tech Lead:** Diagnose mass NaN, analyze DOE landscape, recommend feasibility fix
-  - Spawned sub-agent session: `hydrotech-doe-analysis`
-- **Pending CEO decision:** Relax 10mm displacement constraint? Options presented: relax to ~20mm, expand DVs, or keep and find boundary
-- Optimizer + Study Builder on standby for Phase 2 (TPE) after fixes
-
-## Mass NaN Fix — COMMITTED ✅
-- **Commit:** `580ed65` on Atomizer repo main branch
-- **Root cause:** `solve_simulation.py` journal's `solve_simple_workflow()` tried to read mass via expression `p173` after part switching (geom→FEM→SIM→solve→back). Expression was stale/inaccessible after switching. `_temp_mass.txt` never written.
-- **NOT** the `M1_Blank` hardcoding (that's assembly workflow only). Beam uses `solve_simple_workflow` (no `.afm`).
-- **Fix (2 edits):**
-  1. Extract mass RIGHT AFTER geometry rebuild (`DoUpdate()`) while geom part is work part — uses `MeasureManager.NewMassProperties()` (computes fresh from solid bodies)
-  2. Post-solve: skip re-extraction if already done; fallback to MeasureManager instead of p173
-- **NX Expert** did the fix but did NOT use MCP server — was a code-level debug task, not API discovery
-- **NX Expert Slack issue:** sub-agent couldn't post to #all-atomizer-hq (channel ID routing problem for spawned agents)
-- **Next:** Pull on dalidou, test single trial, then re-run full DOE with 20mm constraint
-
-## Sub-agent Issues
-- Tech Lead sub-agents both hit 200K token context limit and aborted (`abortedLastRun: true`)
-- Had to do diagnosis myself then delegate to NX Expert
-- NX Expert also couldn't post to Slack (channel_not_found with various target formats)
-- **Lesson:** Sub-agents need leaner prompts, and Slack channel routing needs fixing for spawned sessions
-
-## DEC-HB-012 — Displacement Constraint Relaxed
-- 10mm → 20mm, CEO approved (dummy case, pipeline proving)
-- Updated CONTEXT.md and DECISIONS.md in project folder

hq/workspaces/manager/memory/2026-02-19.md

@@ -1,36 +0,0 @@
-# 2026-02-19
-
-## Nightly Digestion — OP_11 (Incremental)
-
-### STORE
-- Updated MEMORY.md: Project Standard status now reflects full review package + auditor MVS recommendation
-- Updated MEMORY.md: Added lessons about Secretary Slack issues and Auditor value
-- Updated PROJECT_STATUS.md with current state of all 3 active projects
-- Captured: Hydrotech still blocked on dalidou pull, Project Standard awaiting CEO decision
-
-### DISCARD
-- No memory files older than 30 days (oldest is Feb 8 = 11 days)
-- No contradictions found in MEMORY.md
-- No stale TODOs identified — both active projects are genuinely waiting on Antoine
-
-### SORT
-- Project Standard insight promoted: "Auditor recommends MVS over full spec" → MEMORY.md (was only in project_log.md)
-- "Sub-agents can't post to Slack" lesson confirmed still relevant (Secretary hit same issue Feb 19)
-
-### REPAIR
-- Fixed: Webster missing from AGENTS.md Agent Directory table (was only in specialists list)
-- Verified: All 7 agent SOUL.md files present and populated
-- Verified: All HEARTBEAT.md files current (Feb 19)
-- Verified: No broken file paths in MEMORY.md
-- PROJECT_STATUS.md was stale (last updated Feb 15, only had material research) — fully rewritten
-- Noted: Auditor blocked on P-Adaptive-Isogrid review since Feb 16 — Tech Lead hasn't responded
-
-### EVOLVE
-- Observation: Project Standard orchestration worked well (multi-agent: tech-lead + auditor + webster + secretary) — the taskboard protocol is maturing
-- Issue: Secretary and sub-agents still can't post to Slack reliably — this is a recurring infrastructure gap. Should investigate gateway config fix.
-- mc-update.sh `list` command doesn't work — limits dashboard utility
-
-### SELF-DOCUMENT
-- AGENTS.md: Added Webster to Active Team table
-- PROJECT_STATUS.md: Full rewrite with current state
-- MEMORY.md: Updated active projects section

hq/workspaces/manager/memory/2026-02-20.md

@@ -1,32 +0,0 @@
-# 2026-02-20
-
-## Nightly Digestion — OP_11 (Incremental)
-
-### STORE
-- New project discovered: **Adaptive Isogrid Plate Lightweighting** — full technical spec + 3 reviews (optimizer, tech-lead, webster) in `shared/war-room-isogrid/`. Created Feb 19 evening.
-- Webster hit web_search API key issue (TASK-001 blocked) — infrastructure gap noted
-- No new Antoine corrections to capture
-
-### DISCARD
-- No memory files older than 30 days (oldest Feb 8 = 12 days)
-- No contradictions found
-- No stale TODOs — projects still genuinely waiting on Antoine
-
-### SORT
-- Adaptive Isogrid project added to MEMORY.md and PROJECT_STATUS.md as new active project
-- P-Adaptive-Isogrid auditor block (since Feb 16) may now be resolvable — spec + reviews exist in war-room
-
-### REPAIR
-- PROJECT_STATUS.md updated to include Adaptive Isogrid project
-- MEMORY.md updated with new project entry
-- Noted: Webster web_search API key issue needs infrastructure fix (escalate to Mario)
-- Verified: All agent workspaces intact, no broken paths
-
-### EVOLVE
-- Low activity day — no process issues observed
-- Webster API key issue is a capability gap — should be escalated
-
-### SELF-DOCUMENT
-- MEMORY.md: Added Adaptive Isogrid project
-- PROJECT_STATUS.md: Added Adaptive Isogrid entry
-- This daily note created

hq/workspaces/manager/memory/2026-02-21.md

@@ -1,28 +0,0 @@
-# 2026-02-21
-
-## Nightly Digestion — OP_11 (Incremental)
-
-### STORE
-- No new activity since last digestion (Feb 20). All projects remain in same state.
-- war-room-overhaul/repo-structure.md created Feb 20 — repo audit artifact for future overhaul work
-
-### DISCARD
-- No files older than 30 days (oldest: Feb 8 = 13 days)
-- No contradictions found
-- No stale TODOs
-
-### SORT
-- Nothing to promote — no new learnings
-
-### REPAIR
-- All key paths verified intact (standardization, war-room-isogrid, war-room-overhaul)
-- PROJECT_STATUS.md still accurate — no state changes
-- MEMORY.md still accurate
-
-### EVOLVE
-- No issues observed. Weekend quiet period.
-- Outstanding: Webster web_search API key still unresolved (needs Mario)
-- Outstanding: Auditor P-Adaptive-Isogrid block (since Feb 16) still unresolved — Tech Lead never responded
-
-### SELF-DOCUMENT
-- No changes needed — docs current from Feb 20 digestion

hq/workspaces/manager/memory/2026-02-22.md

@@ -1,95 +0,0 @@
-# 2026-02-22
-
-## Nightly Digestion — OP_11 (Incremental)
-
-### STORE
-- New artifact: `MIND_MAP_AUDIT.md` (16KB) created Feb 21 — comprehensive audit of Excalidraw master mind map vs actual codebase/docs. 385 text nodes reviewed. Identifies gaps between mind map and reality.
-- No new Antoine corrections. No new project activity. Weekend quiet period continues.
-
-### DISCARD
-- Manager memory files: oldest is Feb 8 (14 days) — all within 30-day retention
-- **Flagged:** Tech Lead has 2 legacy files from 2025 (`2025-02-09.md`, `2025-07-17.md`) — pre-HQ era Hydrotech Beam logs. Contains useful domain knowledge (NXOpenSolver implementation, technical breakdown). Not deleting — but should be consolidated into Tech Lead's MEMORY.md or project KB during next deep digestion.
-- No contradictions found in current memory files
-- No stale TODOs — all 3 active projects genuinely awaiting CEO input
-
-### SORT
-- MIND_MAP_AUDIT.md lives correctly at workspace root (one-off audit artifact, not a daily note)
-- No patterns to promote — quiet weekend
-
-### REPAIR
-- PROJECT_STATUS.md still accurate — no state changes since Feb 20
-- MEMORY.md still accurate
-- All key paths verified: `shared/standardization/`, `shared/war-room-isogrid/`, `shared/war-room-overhaul/` intact
-- Outstanding blockers unchanged:
-  - Hydrotech Beam: blocked on Antoine (dalidou pull + test)
-  - Project Standard: awaiting CEO decision (full spec vs MVS)
-  - Adaptive Isogrid: awaiting CEO review
-  - Auditor P-Adaptive-Isogrid block (since Feb 16): still unresolved
-  - Webster web_search API key: still needs Mario
-
-### EVOLVE
-- No process issues this cycle
-- Observation: 3 projects all blocked on CEO review simultaneously. When Antoine returns, priority triage will be needed to avoid bottleneck.
-- MIND_MAP_AUDIT provides roadmap for docs/mind-map alignment — useful for next active work phase
-
-### SELF-DOCUMENT
-- No changes needed — docs current
-
----
-
-## AOM Project — MASSIVE Session (afternoon)
-
-### What Happened
-Antoine came in and asked about AOM project status. Resulted in a multi-hour session covering:
-
-1. **AOM Phase 3 completed** — wrote 6 remaining docs (Decision Log, Evolution Principles, Failure Patterns, Digestion Protocol, Context Engineering, Project KB Template). AOM went from ~85% → 100% content (30 docs, ~7,600 lines).
-
-2. **Phase 4 (LLM Layer) completed** — 3 docs: CLAUDE.md v2 (150 lines replacing 871-line v1), Context-Loading Strategy (4-layer system), AOM Skill Module.
-
-3. **Phase 5 (Living Protocol) completed** — maintenance rules, update triggers, health checks, ownership model.
-
-4. **Tool-Agnostic Architecture Plan** — Antoine asked for a plan to make Atomizer solver-agnostic. Researched the Arsenal doc (800+ lines), wrote `ATOMIZER-TOOL-AGNOSTIC-ARCHITECTURE.md` (28KB) with: 3 abstraction layers (contracts → processors → orchestrator), AtomizerSpec v3.0 with ToolchainConfig, 7-sprint implementation roadmap, V2 repo structure.
-
-5. **AOM V2 Integration** — Antoine said "document first, code later." Audited all 30 AOM docs for NX-hardcoding, created 5-phase integration plan. Executed ALL phases:
-   - Phase A: 4 new foundation docs (Tool-Agnostic Architecture, Data Contracts Reference, Processor Dev Guide, Arsenal Reference)
-   - Phase B: 5 core rewrites (System Architecture, Component Map, Codebase Architecture, Extension Points, Multi-Solver Roadmap)
-   - Phase C: 19 surgical updates across all pillars
-   - Phase D: 5 new solver guides (CalculiX, Gmsh, OpenFOAM, Multi-Physics, MCP Server Dev)
-   - Phase E: MAP + final updates
-
-   **Result: AOM grew from 37 → 48 docs, ~8,830 lines. Zero NX-only assumptions remain.**
-
-6. **V2 Migration Master Plan** — Antoine confirmed new repo at `http://192.168.86.50:3000/Antoine/Atomizer-V2` (Gitea, currently empty). Wrote comprehensive migration plan (28KB): complete V2 repo structure, what migrates vs doesn't, 6-phase execution (8 days), .gitignore, pyproject.toml, README.md draft, Obsidian sync strategy.
-
-### Key Decisions Made (by Antoine)
-- DEC-030: Tool-agnostic architecture approved
-- DEC-032: New repo (V2) instead of cleaning V1
-- DEC-033: Documentation-first — AOM before code
-- DEC-021: AOM stays in Obsidian until migration
-- V2 Gitea repo created at `192.168.86.50:3000/Antoine/Atomizer-V2`
-
-### CEO Decisions Still Pending (for migration)
-1. License type (Apache 2.0 / MIT)
-2. GitHub repo name
-3. Obsidian ↔ repo sync strategy
-4. HQ separation (in V2 or separate?)
-5. Confirm projects/ stays off git
-6. GitHub visibility (public/private)
-7. Timing to start
-
-### Files Created/Modified Today
-- `P-Atomizer-Operating-Manual/` — 11 new docs, 5 rewrites, 19 updates
-- `Atomizer-AtomasteAI/Development/ATOMIZER-TOOL-AGNOSTIC-ARCHITECTURE.md` (28KB)
-- `Atomizer-AtomasteAI/Development/ATOMIZER-V2-MIGRATION-MASTERPLAN.md` (28KB)
-- Integration plan archived to `P-Atomizer-Operating-Manual/Archive/`
-
-### Blocker: Sub-agent Spawning
-- `sessions_spawn` fails with "gateway closed (1008): pairing required" — both with `agentId=auditor` and without
-- This blocks delegating work to Auditor (or any sub-agent)
-- Asked Antoine for preference: self-review on Opus or wait for infra fix
-- No response yet as of 7pm
-
-### Next Steps
-- Awaiting Antoine's decision on auditor review approach (self vs wait for infra)
-- Antoine reviewing migration master plan
-- After CEO approval → execute Phase 0 (repo bootstrap + AOM deployment)

hq/workspaces/manager/memory/2026-02-23.md

@@ -1,35 +0,0 @@
-# 2026-02-23
-
-## Nightly Digestion — OP_11 (Incremental)
-
-### STORE
-- **AOM V2 Migration** is the dominant new workstream as of Feb 22. Massive session: AOM completed (48 docs, ~8,830 lines), tool-agnostic architecture approved (DEC-030), V2 repo created at `192.168.86.50:3000/Antoine/Atomizer-V2` (DEC-032), documentation-first approach confirmed (DEC-033).
-- Auditor delivered V2 migration audit (288 lines) identifying 11 findings including 13 missing V1 modules. Revised masterplan (V2) produced addressing all findings — 12-day realistic timeline.
-- Code review also delivered (`shared/reviews/v2-migration-code-review.md`, 255 lines).
-- 6 CEO decisions still pending for V2 migration: license type, GitHub name, sync strategy, HQ separation, projects/ exclusion, visibility, timing.
-- Sub-agent spawning broken ("gateway closed 1008: pairing required") — blocks delegation. Unresolved.
-
-### DISCARD
-- Memory files: oldest is Feb 8 (15 days) — within 30-day retention. No pruning needed.
-- No contradictions found in current memory.
-- No stale TODOs resolved since last cycle.
-
-### SORT
-- V2 Migration reviews correctly placed in `shared/reviews/` (project-level artifacts).
-- AOM docs live in Obsidian vault (correct — CEO decision DEC-021).
-- No patterns to promote from session-level to domain-level.
-
-### REPAIR
-- **PROJECT_STATUS.md needs update** — doesn't reflect AOM/V2 Migration project or auditor's V2 audit deliverable. Updating now.
-- Auditor P-Adaptive-Isogrid block: still unresolved (since Feb 16, now 7 days). Tech Lead has not responded.
-- Webster web_search API key: still needs Mario (since Feb 19).
-- Sub-agent spawning: broken since Feb 22 at minimum. Infrastructure issue for Mario.
-
-### EVOLVE
-- **Observation:** The Feb 22 session was a solo mega-session (Manager did everything — AOM writing, architecture, migration planning) because sub-agent spawning is broken. This is unsustainable for complex work. Sub-agent infra fix is critical.
-- **Observation:** 4 projects now awaiting CEO input simultaneously (Hydrotech Beam, Project Standard, Adaptive Isogrid, V2 Migration decisions). Priority triage essential when Antoine returns.
-- **Process note:** Auditor review via spawned sub-agent DID work on Feb 22 (delivered the V2 audit) — so spawning may be intermittent, not fully broken. Worth retesting.
-
-### SELF-DOCUMENT
-- PROJECT_STATUS.md updated to include AOM/V2 Migration project.
-- No other doc changes needed.

hq/workspaces/manager/memory/2026-03-20.md

@@ -0,0 +1,41 @@
+# 2026-03-20
+
+## Nightly Digestion — OP_11 (Incremental/Weekly)
+
+**Note:** 8-day gap since last digestion (Mar 12). No nightly logs exist for Mar 13–19 — likely cron delivery issue or gateway downtime during that period.
+
+### STORE
+- **NEW PROJECT DISCOVERED:** GigaBIT M1 — Reference Frame Stiffness Characterization (P04-GigaBIT-M1). Client: StarSpec (Adyn Miles). Active since Mar 4. Antoine working directly on this. Hybrid B+D method, SOL 101, ~42 runs. ΔWFE ≤1.0 nm RMS budget.
+- **Zernike V&V COMPLETE:** P-Zernike-Validation finished Mar 9. 18 test cases, prysm cross-validation to machine precision. Risk reduction for M2/M3 ordering. Commits `f9373be`, `075ad36`.
+- **Tier 2 dev workflow:** Windows test runner + Syncthing result sync added Mar 7 (commit `b3162aa`).
+- Updated MEMORY.md with new projects and reprioritized project list.
+- Updated PROJECT_STATUS.md (was stale since Mar 3 — now current).
+
+### DISCARD
+- **Archived** `2026-02-11.md` and `2026-02-13.md` (37+ days old). Key facts preserved in archive summaries.
+- **Compressed 15 idle-only daily logs** (Feb 26 – Mar 12) into single archive summary (`archive/2026-02-26_to_2026-03-12_idle-period.md`). These contained only digestion-cycle boilerplate with zero substantive activity. Originals retained (not yet 30 days) but archive summary created for when they age out.
+- Feb 19 hits 30-day threshold tomorrow — queued for next cycle.
+
+### SORT
+- GigaBIT M1 promoted to top of Active Projects in MEMORY.md (it's where Antoine is spending time).
+- Hydrotech Beam deprioritized with note that Antoine is focused on GigaBIT now.
+- Zernike V&V logged as completed project with cross-references.
+
+### REPAIR
+- **All 12 key infrastructure paths verified** ✓ (taskboard, mc-update, CLUSTER, AGENTS_REGISTRY, orchestrate tools, MCP server, protocols)
+- **All 7 agent workspaces present** ✓
+- **Mission Control dashboard** responding (HTTP 200) ✓
+- **PROJECT_STATUS.md was 17 days stale** (last updated Mar 3) — now updated with GigaBIT M1 and current state.
+- **7 Mission Control tasks stuck** in `in_progress` or `review` since mid-February — flagged for cleanup when Antoine returns to HQ work.
+- **Gap identified:** Mar 13–19 digestion logs missing. Cron job may have had delivery issues or gateway was down. No data loss — just missing the nightly check-ins.
+
+### EVOLVE
+- **Standing OP_11 amendment proposal** (since Mar 8, now 12 days): idle-mode rule for weekly-only digestion when no workspace changes for 7+ days. Requires CEO approval.
+- **Observation:** Antoine is doing significant direct work (GigaBIT M1, Zernike V&V, dev workflow) without HQ agent involvement. The team may need to be more proactive about supporting active client work vs. waiting to be tasked.
+- **Recommendation:** When Antoine next engages HQ, offer GigaBIT M1 support (Tech Lead for sensitivity analysis, Optimizer for stiffness sweep design, Webster for literature on mirror mount compliance requirements).
+
+### SELF-DOCUMENT
+- MEMORY.md updated with GigaBIT M1 project, Zernike V&V completion, and reprioritized project list.
+- PROJECT_STATUS.md fully refreshed (was 17 days stale).
+- No changes needed to SOUL.md, IDENTITY.md, or TOOLS.md — all still accurate.
+- Agent workspace docs (other agents) not checked this cycle — no activity detected in their workspaces.

hq/workspaces/manager/memory/2026-03-21.md

@@ -0,0 +1,26 @@
+# 2026-03-21
+
+## Nightly Digestion — OP_11 (Incremental)
+
+### STORE
+- No new activity. Zero substantive file changes across all workspaces since Mar 20 digestion.
+- Obsidian Operating Manual files touched at exactly 08:00:01 UTC — Syncthing sync artifact, not content changes.
+
+### DISCARD
+- **Feb 19** daily log hits 30-day threshold tomorrow (Mar 22) — queued for archive.
+- Feb 20–28 all still under 30 days. No archival needed today.
+- No contradictions found.
+
+### SORT
+- Nothing to promote or reorganize.
+
+### REPAIR
+- All key infrastructure paths verified (spot check): taskboard.json ✓, mc-update.sh ✓, CLUSTER.md ✓, AGENTS_REGISTRY.json ✓
+- No broken references in MEMORY.md.
+- PROJECT_STATUS.md is current (updated Mar 20).
+
+### EVOLVE
+- **Standing OP_11 idle-mode amendment (Day 22):** No workspace changes for 22+ consecutive days (since Feb 28, excluding digestion entries). Nightly → weekly switch proposal still requires CEO approval.
+
+### SELF-DOCUMENT
+- No changes needed. All docs current as of Mar 20 digestion.

hq/workspaces/manager/memory/2026-03-22.md

@@ -0,0 +1,36 @@
+# 2026-03-22
+
+## Nightly Digestion — OP_11 (Incremental)
+
+### STORE
+- **NEW PROJECT DISCOVERED:** Polisher-Fullum-Overhaul — active since Feb 2. Upgrading swing arm polisher for GigaBIT M1 mirror (1.2m Zerodur, F/1.2, ≤22nm RMS WFE). Team: Cedric (lead), Antoine (engineering), Normand (master optician). Currently in Compliant Joint Study (trade study done — diaphragm flexure + conical flexure shortlisted). Toolhead architecture being defined. Active work Mar 20-21.
+- **NEW DOCUMENTATION:** Atomizer Operating Manual — 16+ operations chapters in Obsidian covering full Atomizer framework (CalculiX, Gmsh, Topology Optimization, NX Integration, etc.). Significant writing effort, active as of Mar 21.
+- Updated MEMORY.md: added both projects to Active Projects section.
+
+### DISCARD
+- **Archived** `2026-02-19.md` (31 days old). Key facts preserved in `archive/2026-02-19.md`.
+- Feb 20 hits 30-day threshold tomorrow — queued for next cycle.
+- No contradictions found in MEMORY.md.
+- No stale TODOs — all blocked items are genuinely waiting on Antoine.
+
+### SORT
+- Polisher-Fullum-Overhaul added to Active Projects in MEMORY.md (high activity, client project).
+- Atomizer Operating Manual added to Active Projects (documentation project, significant scope).
+- Both marked as "Antoine's direct work" — not HQ-managed.
+- Hydrotech Beam deprioritization note updated (Antoine focused on Polisher/GigaBIT, not just GigaBIT).
+
+### REPAIR
+- **All 7 key infrastructure paths verified** ✓ (taskboard, mc-update, CLUSTER, AGENTS_REGISTRY, orchestrate, PROJECT_STATUS, OP_11 protocol)
+- **All 7 agent workspaces present** ✓
+- **No broken file paths in MEMORY.md** ✓
+- **Taskboard:** Only 1 task (ATZ-001 example) — still backlog. 7 Mission Control tasks from Feb still unresolved (flagged Mar 20, no change).
+- **PROJECT_STATUS.md** needs update for Polisher-Fullum and Operating Manual — deferred to next active session (these are Antoine's projects, not HQ-managed).
+
+### EVOLVE
+- **Standing OP_11 idle-mode amendment (Day 23):** No HQ-managed workspace changes for 23+ consecutive days. However, Antoine is actively working on Polisher-Fullum and Operating Manual outside HQ. The idle period is HQ-specific, not company-wide.
+- **Observation:** Antoine has 3 active workstreams (GigaBIT M1, Polisher-Fullum, Operating Manual) all running without HQ agent involvement. The team should be ready to support when called upon — particularly Tech Lead for compliant joint FEA, Optimizer for parametric sweeps on flexure geometry, and Webster for literature on diaphragm flexure stiffness models.
+- **Cron reliability:** Digestion ran successfully Mar 20, 21, 22 — the gap from Mar 13-19 appears resolved.
+
+### SELF-DOCUMENT
+- MEMORY.md: Added Polisher-Fullum-Overhaul and Atomizer Operating Manual to Active Projects.
+- No changes needed to SOUL.md, IDENTITY.md, AGENTS.md, or TOOLS.md — all current.

hq/workspaces/manager/memory/2026-03-23.md

@@ -0,0 +1,34 @@
+# 2026-03-23
+
+## Nightly Digestion — OP_11 (Incremental)
+
+### STORE
+- **Polisher-Fullum progressing:** New Implementation docs (Stochastic-Dither-Reference, Claude-Desktop-Instructions, Simulation-Physics-Reference updates) and Compliant Joint Study advancing — conical flexure NX modeling guide, COR analysis + architecture pivot, diaphragm stiffness analysis, dual diaphragm Z-block analysis. Excalidraw concept drawings created. Antoine actively developing toolhead architecture.
+- **Operating Manual:** 52 files touched in last 24h (Syncthing sync — likely batch update to Operations chapters and Knowledge section).
+- No new Antoine corrections to capture. No new HQ-managed project activity.
+
+### DISCARD
+- **Archived and removed** `2026-02-19.md`, `2026-02-20.md`, `2026-02-21.md` (30-31 days old). Key facts preserved in `archive/` summaries.
+- Feb 22 hits 30-day threshold tomorrow — queued for next cycle.
+- Feb 26-28 already covered by `archive/2026-02-26_to_2026-03-12_idle-period.md` — originals can be cleaned when they hit 30 days (Feb 22-25 first).
+- No contradictions found in MEMORY.md.
+- No stale TODOs.
+
+### SORT
+- Nothing to promote. Polisher-Fullum and Operating Manual remain Antoine's direct work, not HQ-managed.
+- Polisher project has evolved from "concept research" to active implementation/simulation phase — noted but no MEMORY.md update needed (project description already covers this scope).
+
+### REPAIR
+- **All 7 key infrastructure paths verified** ✓ (taskboard, mc-update, CLUSTER, AGENTS_REGISTRY, orchestrate, PROJECT_STATUS, OP_11 protocol)
+- **All 6 agent workspaces present** ✓
+- **No broken file paths in MEMORY.md** ✓
+- **Taskboard:** Unchanged — ATZ-001 example only. 7 Mission Control tasks from Feb still unresolved.
+- **PROJECT_STATUS.md:** Current as of Mar 22 digestion.
+
+### EVOLVE
+- **Standing OP_11 idle-mode amendment (Day 24):** No HQ-managed workspace changes for 24+ consecutive days. Antoine remains active on his own projects (Polisher-Fullum now in simulation/implementation phase, Operating Manual writing). Team ready to support when called.
+- **Readiness note:** Polisher toolhead work (diaphragm flexure stiffness, conical flexure modeling, COR analysis) is exactly the kind of work Tech Lead and Optimizer could support — parametric FEA sweeps, compliance matrix analysis, joint stiffness characterization. If Antoine pulls us in, we're prepared.
+- **Cron reliability:** 4 consecutive successful digestions (Mar 20-23). Gap issue from Mar 13-19 appears resolved.
+
+### SELF-DOCUMENT
+- No changes needed to MEMORY.md, SOUL.md, IDENTITY.md, AGENTS.md, or TOOLS.md — all current.

hq/workspaces/manager/memory/2026-03-24.md

@@ -0,0 +1,34 @@
+# 2026-03-24
+
+## Nightly Digestion — OP_11 (Incremental)
+
+### STORE
+- **Polisher-Fullum advancing:** New git commit `e88db32` — "Initial: toolhead flexure design notebook + NXOpen script". Files added: `toolhead_flexure_nxopen.py`, `Toolhead_Flexure_Design.ipynb`, `Toolhead_Flexure_NXOpen.ipynb`, `03-NXOpen-Script-Prompt.md`, `README-INSTRUCTIONS.md`. Antoine is moving from concept research into parametric modeling — NXOpen scripted flexure generation.
+- **Operating Manual:** 52 files touched again (Syncthing sync — batch update to Operations chapters and Knowledge section, same pattern as Mar 23). Continued writing effort.
+- No new Antoine corrections. No new HQ-managed project activity.
+
+### DISCARD
+- **Archived** `2026-02-22.md` (30 days old). Key facts preserved in `archive/2026-02-22.md` (MIND_MAP_AUDIT creation, weekend quiet period).
+- Feb 23 hits 30-day threshold tomorrow — queued for next cycle.
+- Feb 24-25 originals still under 30 days. Feb 26-28 covered by `archive/2026-02-26_to_2026-03-12_idle-period.md`.
+- No contradictions found in MEMORY.md.
+- No stale TODOs.
+
+### SORT
+- Nothing to promote. Polisher-Fullum and Operating Manual remain Antoine's direct work.
+- Polisher project evolution noted: moved from trade studies → NXOpen parametric scripting phase. Significant capability development (automated flexure geometry generation).
+
+### REPAIR
+- **All 7 key infrastructure paths verified** ✓
+- **All 7 agent workspaces present** ✓
+- **No broken file paths in MEMORY.md** ✓
+- **Taskboard:** Unchanged (ATZ-001 example only). Mission Control tasks.json still has stale tasks from Feb.
+- **PROJECT_STATUS.md:** Current as of Mar 20 digestion. No state changes require update.
+
+### EVOLVE
+- **Standing OP_11 idle-mode amendment (Day 25):** No HQ-managed workspace changes for 25+ consecutive days. Antoine remains active on own projects (Polisher-Fullum now in NXOpen scripted parametric modeling, Operating Manual writing).
+- **Readiness note:** The NXOpen scripted flexure work (`toolhead_flexure_nxopen.py`) is exactly the type of work Study Builder could support — parametric NX journal generation, batch run setup, result extraction. Tech Lead and Optimizer could support design space exploration once Antoine has the base geometry parametrized.
+- **Cron reliability:** 5 consecutive successful digestions (Mar 20-24). Gap issue from Mar 13-19 fully resolved.
+
+### SELF-DOCUMENT
+- No changes needed to MEMORY.md, SOUL.md, IDENTITY.md, AGENTS.md, or TOOLS.md — all current.

hq/workspaces/manager/memory/2026-03-27.md

@@ -0,0 +1,28 @@
+# 2026-03-27
+
+## Nightly Digestion — OP_11 (Incremental)
+
+### STORE
+- Reviewed current manager long-term memory plus recent digestion history. No new long-term project facts needed promotion tonight.
+- Captured a compressed archive summary for manager daily digestion notes covering **2026-02-23 to 2026-02-25** at `memory/archive/2026-02-23_to_2026-02-25.md`.
+
+### DISCARD
+- Pruned three stale manager daily notes past retention threshold by compressing and removing the originals: `2026-02-23.md`, `2026-02-24.md`, `2026-02-25.md`.
+- Confirmed no new contradictions in `manager/MEMORY.md` from recent cycles.
+
+### SORT
+- Kept retained facts at the archive level because they are historical digestion/admin state, not new company-level doctrine.
+- Left project artifacts in place (`shared/reviews/`, agent docs, project memory) because they remain the correct abstraction level.
+
+### REPAIR
+- Repaired `secretary/memory/pending.md` to stop referring specifically to "Discord communication" and instead describe the issue as a broader messaging/delivery-path problem.
+- Verified the referenced condensation directory exists; the pending note is now less likely to mislead future agents about the current platform.
+- Spot-check showed many legacy docs still reference Discord-era workflows and some stale paths; noted but not mass-edited during this incremental pass.
+
+### EVOLVE
+- Clear drift pattern: several workspaces still carry Discord-era operational language even though Manager runtime now centers on OpenClaw-native orchestration and Slack/message-tool posting.
+- Recommended next focused digestion/repair pass: normalize agent-facing docs from Discord-era wording to current OpenClaw/Slack routing where still operationally relevant.
+
+### SELF-DOCUMENT
+- Updated the Secretary pending-memory wording to reflect current reality more accurately.
+- No changes needed tonight to Manager `MEMORY.md`, `SOUL.md`, `IDENTITY.md`, `AGENTS.md`, or `TOOLS.md`.

hq/workspaces/manager/memory/2026-03-28.md

@@ -0,0 +1,30 @@
+# 2026-03-28
+
+## Nightly Digestion — OP_11 (Incremental)
+
+### STORE
+- Reviewed recent manager digestion state plus current cross-workspace memory/docs.
+- Captured tonight's real operational lesson in `manager/MEMORY.md`: platform wording updated from legacy Clawdbot framing to current OpenClaw-native orchestration + Slack/message delivery.
+
+### DISCARD
+- Pruned stale Discord-bridge assumptions from high-impact shared docs instead of leaving contradictory routing guidance in place.
+- Did not mass-delete old agent memory files tonight; many older files are sparse but still historical artifacts rather than clear noise. Better candidate for a dedicated archive pass with per-agent summaries.
+
+### SORT
+- Kept routing/process corrections at the company/shared-doc level because the issue affects multiple agents, not just one session.
+- Left project-specific memory in place; no new project/domain insights needed promotion tonight.
+
+### REPAIR
+- Repaired `shared/CLUSTER.md` to point agents to native OpenClaw orchestration (`sessions_spawn` / `sessions_send`) and current Slack/channel delivery expectations.
+- Repaired `shared/skills/taskboard/SKILL.md` to remove Discord-specific delivery wording.
+- Repaired `manager/TOOLS.md` to prefer native orchestration over legacy Discord-era delegation habits.
+- Repaired `secretary/AGENTS.md` to remove Discord-bridge assumptions and generalize delivery/retry rules to the active messaging path.
+- Verified key operational paths still exist: shared `mc-update.sh`, mission-control `mc-update.sh`, `hq/taskboard.json`, `shared/CLUSTER.md`, `shared/AGENTS_REGISTRY.json`, taskboard skill.
+
+### EVOLVE
+- Drift pattern confirmed: many non-manager agent docs still contain Discord-era operational language. Highest-value next digestion pass is a broader documentation normalization sweep across all agent workspaces.
+- Recommendation: prioritize shared/core docs first (done), then agent-local AGENTS/CHANNELS/HEARTBEAT files in batches so we do not create inconsistent partial rewrites.
+
+### SELF-DOCUMENT
+- Updated company/shared docs to better reflect current runtime reality.
+- No changes needed tonight to Manager `SOUL.md`, `IDENTITY.md`, or task/project memory.

hq/workspaces/manager/memory/2026-03-29.md

@@ -0,0 +1,30 @@
+# 2026-03-29
+
+## Nightly Digestion — OP_11 (Incremental)
+
+### STORE
+- Reviewed current manager/shared state plus cross-workspace memory surfaces with recent or still-actionable content.
+- Captured tonight's digestion outcome in this daily note rather than promoting any new domain/project knowledge; no fresh technical lessons surfaced.
+
+### DISCARD
+- Identified stale outage-era assumptions that were still phrased like active blockers.
+- Did not delete old agent memory files tonight; many are sparse and better handled in a dedicated archive pass with per-agent summaries.
+
+### SORT
+- Kept the fixes at the shared/process layer because they affect multiple agents and status docs, not a single project.
+- Left historical planning docs in `context-docs/` untouched; they are founding artifacts even where they still use legacy Clawdbot wording.
+
+### REPAIR
+- Repaired `manager/TOOLS.md` to remove a broken `knowledge_base/projects/` path reference.
+- Updated `shared/PROJECT_STATUS.md` timestamp for this digestion pass.
+- Repaired `shared/PROJECT_STATUS.md` to stop presenting Webster's old search/API-key issue as a current blocker without re-verification.
+- Reframed `secretary/memory/pending.md` outage note as historical delivery debt rather than proof of an active current messaging failure.
+- Verified that the repo still contains `knowledge_base/` and `knowledge_base/lac/`, but no dedicated `knowledge_base/projects/` directory yet.
+
+### EVOLVE
+- Recurring drift pattern: historical outage notes and early-platform assumptions tend to survive as if still current. Future digestion passes should explicitly classify notes as either historical, active, or resolved.
+- Recommended next pass: scan remaining high-signal manager context docs and audits for legacy platform/runtime wording, but preserve historical planning docs unless rewriting them intentionally.
+
+### SELF-DOCUMENT
+- Updated live operational docs/status files only.
+- No changes needed tonight to Manager `SOUL.md`, `IDENTITY.md`, or taskboard/process ownership docs.

hq/workspaces/manager/memory/2026-04-01.md

@@ -0,0 +1,30 @@
+# 2026-04-01
+
+## Nightly Digestion — OP_11 (Incremental)
+
+### STORE
+- Reviewed current manager long-term memory, recent digestion history, `shared/PROJECT_STATUS.md`, and cross-workspace memory/doc timestamps.
+- Confirmed no new substantive agent-workspace activity since the Mar 29 digestion pass; no new technical/project facts required promotion tonight.
+- Preserved the only meaningful lesson from the Mar 1–12 idle run by compressing those notes into `memory/archive/2026-03-01_to_2026-03-12_idle-digestion.md`.
+
+### DISCARD
+- Pruned twelve stale manager daily notes past retention threshold by archiving and removing `2026-03-01.md` through `2026-03-12.md`.
+- Confirmed those files were repetitive idle-period digestion logs and did not merit separate active-memory retention.
+- No contradictions found in active manager memory during this pass.
+
+### SORT
+- Kept the March 1–12 compression at the archive level because it is historical operational context, not company doctrine.
+- Left project facts in `MEMORY.md` and `shared/PROJECT_STATUS.md` at the correct abstraction level.
+
+### REPAIR
+- Refreshed `shared/PROJECT_STATUS.md` timestamp for the current digestion cycle.
+- Spot-checked current operational surfaces: manager/shared docs and recent memory files remain internally consistent with the presently quiet HQ state.
+- No new broken path references were introduced in the reviewed files.
+
+### EVOLVE
+- The idle-noise pattern remains real: long stretches of nightly digestion still create low-value repetition when no work changed.
+- Existing amendment proposal stands: add an OP_11 idle-mode rule to reduce cadence during 7+ day no-change windows. This remains a proposal only and needs CEO approval before protocol change.
+
+### SELF-DOCUMENT
+- Added this digestion note.
+- No changes needed tonight to Manager `MEMORY.md`, `SOUL.md`, `IDENTITY.md`, `AGENTS.md`, or `TOOLS.md`.

hq/workspaces/manager/memory/2026-04-02.md

@@ -0,0 +1,35 @@
+# 2026-04-02
+
+## Nightly Digestion — OP_11 (Incremental)
+
+### STORE
+- Reviewed the last ~36 hours of activity across manager/shared workspace surfaces.
+- Confirmed there was still no new specialist project output to promote into long-term memory or project knowledge.
+- Preserved the only still-relevant signal from four stale February daily notes by compressing them into `memory/archive/2026-02-22_to_2026-02-28_idle-and-aom-summary.md`.
+
+### DISCARD
+- Pruned four stale manager daily notes past retention threshold: `2026-02-22.md`, `2026-02-26.md`, `2026-02-27.md`, `2026-02-28.md`.
+- Identified repetitive stale-task heartbeat comments accumulating in mission-control data on Apr 1; treated this as operational noise rather than new knowledge.
+- No new factual contradictions found in active manager memory.
+
+### SORT
+- Kept the Feb 22 AOM/V2 migration session as archive-level historical context, since the enduring decisions already live in higher-level memory/docs.
+- Left current project facts in `MEMORY.md` and `shared/PROJECT_STATUS.md`, but repaired their path references so they resolve correctly.
+
+### REPAIR
+- Fixed broken path references in live docs:
+  - `manager/MEMORY.md`
+  - `shared/PROJECT_STATUS.md`
+  - `manager/AGENTS.md`
+- Refreshed `shared/PROJECT_STATUS.md` timestamp for this digestion pass.
+- Verified key referenced paths now resolve correctly for current workspace usage.
+
+### EVOLVE
+- Reconfirmed the idle-noise pattern: repeated stale-task nudges can bloat mission-control history without adding decision value.
+- Proposed operational improvement remains the same in spirit: reduce OP_11 noise during long idle windows and batch stale-task follow-ups rather than posting near-duplicate comments.
+- No protocol change applied automatically; this is an operational observation, not a silent policy rewrite.
+
+### SELF-DOCUMENT
+- Added this nightly digestion note.
+- Updated path hygiene in active docs so a new agent can follow references without guessing workspace-relative roots.
+- No role/persona/tooling changes needed tonight.

hq/workspaces/manager/memory/2026-04-03.md

@@ -0,0 +1,38 @@
+# 2026-04-03
+
+## Nightly Digestion — OP_11 (Incremental)
+
+### STORE
+- Reviewed active manager/shared status surfaces plus agent workspace memory/doc timestamps for the last day.
+- Confirmed there was no new substantive project output to promote into long-term project knowledge tonight.
+- Captured one reusable operational lesson through direct repair instead of only noting it: specialist AGENT instructions still carried legacy delegate/Discord routing in several workspaces.
+
+### DISCARD
+- Pruned stale runtime assumptions from specialist AGENTS docs where they still instructed agents to rely on `delegate.sh`, Hooks/Discord-bridge behavior, or Discord-only posting rules.
+- Did not archive additional manager daily notes tonight; current active notes are still inside the 30-day retention window.
+- No new factual contradictions found in active manager memory or project status.
+
+### SORT
+- Kept tonight's correction at the workspace/cluster-doc level because the issue affected multiple specialist agents, not a single project.
+- Left project facts in `manager/MEMORY.md` and `shared/PROJECT_STATUS.md` unchanged because no project state actually moved today.
+
+### REPAIR
+- Repaired AGENTS guidance in these specialist workspaces:
+  - `technical-lead/AGENTS.md`
+  - `optimizer/AGENTS.md`
+  - `study-builder/AGENTS.md`
+  - `auditor/AGENTS.md`
+  - `nx-expert/AGENTS.md`
+  - `webster/AGENTS.md`
+- Replaced legacy delegation/routing language with OpenClaw-native orchestration and active-channel wording.
+- Refreshed `shared/PROJECT_STATUS.md` timestamp for this digestion pass.
+- Verified core shared paths still resolve: `shared/CLUSTER.md`, taskboard skill, `shared/mc-update.sh`, mission-control tasks data, and `hq/taskboard.json`.
+
+### EVOLVE
+- Drift pattern is still real: several lower-traffic docs outside the core orchestration surfaces still use Discord-era naming. The highest-value next repair pass is broader normalization of `CHANNELS.md`, `HEARTBEAT.md`, and any still-operational skill docs that mention Discord as if it were current runtime behavior.
+- No protocol amendment made tonight. This was a documentation correction, not a policy change.
+
+### SELF-DOCUMENT
+- Added this digestion note.
+- Updated live specialist AGENTS docs so a newly spawned specialist is less likely to follow deprecated routing instructions.
+- No changes needed tonight to Manager `SOUL.md`, `IDENTITY.md`, `TOOLS.md`, or long-term `MEMORY.md`.

hq/workspaces/manager/memory/archive/2026-02-10.md

@@ -0,0 +1,42 @@
+# Archive Summary — 2026-02-10
+
+**Biggest single day of Hydrotech Beam work.** Full details archived from daily log at 30-day threshold.
+
+## Key Events
+- Received 3 KBS capture sessions from Antoine (NX/Simcenter walkthrough of Hydrotech Beam model)
+- Tech Lead processed sessions → KB Gen 002 update (commit `b88657b`)
+- Mass corrected to **1,133.01 kg** (`p173`) — Antoine correction, ground truth
+- Binary introspection of Beam.prt → full expression table extracted (commit `15a457d`)
+- DV baselines confirmed NOT round: face_thickness=21.504, core_thickness=25.162
+- `beam_lenght` has TYPO in NX (no 'h') — must use exact spelling
+- Gaps G12-G14 closed
+
+## Optimization Pipeline Built (Full Chain)
+1. Optimizer updated strategy with corrected baselines (commit `3e51804`)
+2. Auditor reviewed → APPROVED WITH CONDITIONS (hole spacing formula + web height constraint fixed, commit `94bff37`)
+3. Study Builder completed Phase 1 code: run_doe.py, sampling.py, geometric_checks.py, nx_interface.py (commit `017b90f`)
+4. Study Builder delivered NXOpenSolver wrapper around existing Atomizer engine (commit `33180d6`)
+5. Tech Lead refined NXOpenSolver v2 with auto-detection + fallbacks (commit `390ffed`)
+6. Antoine tested on dalidou → 2 bugs fixed (commit `135698d`)
+7. Full refactor of nx_interface.py → AtomizerNXSolver (commit `126f0bb`)
+
+## Key Technical Facts (Preserved)
+- Beam: 5,000mm length, cantilever (left fixed, right 10,000 kgf down)
+- Hole span = 4,000mm (`p6`), kept fixed (Manager decision)
+- Material: ANSI Steel 1005 (future: aluminum 6061, stainless ANSI 310)
+- Mesh: CQUAD4 thin shells, mid-surface idealization, element size 67.4/2
+- Conda env: `atomizer` on Windows (dalidou), all deps pre-installed
+- Windows path: `C:\Users\antoi\Atomizer\projects\hydrotech-beam\`
+- Existing engine reused: NXSolver + NXParameterUpdater + pyNastran extractors
+
+## Infra Fixes
+- Study Builder model corrected (`claude-sonnet-5` → `claude-sonnet-4-20250514`)
+- API auth propagated to all agents from Manager's auth-profiles.json
+
+## CEO Requests Logged
+- NX Simcenter 3D MCP server — Phase 2/3 roadmap item
+
+## Open at EOD
+- Antoine to test `--backend nxopen` smoke test on dalidou
+- Full 51-trial Phase 1 run pending
+- Phase 2 TPE optimization pending

hq/workspaces/manager/memory/archive/2026-02-11.md

@@ -0,0 +1,18 @@
+# Archive Summary — 2026-02-11
+
+## Key Events
+- Added `#research-and-development` channel (C0AEB39CE5U) to Slack config; all 6 agents bound
+- Set `requireMention: false` globally for all Slack channels per Antoine's request
+
+## NXOpen MCP Server — INSTALLED
+- **Repo**: `http://100.80.199.40:3000/Antoine/NXOpen-MCP.git`
+- **Local path**: `/home/papa/atomizer/tools/nxopen-mcp/`
+- **Data**: 203MB pre-indexed ChromaDB + JSON caches (15,219 NXOpen classes, 64,320 methods, 149 nxopentse functions, 287 pyNastran classes)
+- **Run**: `./run-server.sh`
+- **Protocol**: stdio-based MCP
+- Wired into NX Expert agent via exec/Python subprocess
+
+## NX Expert Agent — HIRED
+- **Agent ID**: `nx-expert` | **Model**: Sonnet 4
+- **Workspace**: `/home/papa/atomizer/workspaces/nx-expert/`
+- First Phase 2 agent — ahead of schedule

hq/workspaces/manager/memory/archive/2026-02-13.md

@@ -0,0 +1,9 @@
+# Archive Summary — 2026-02-13
+
+## Key Events
+- **Nightly Digestion Cron LIVE** — Job `e157faf0`, 4:00 AM ET daily, isolated agentTurn (manager), announces to #all-atomizer-hq
+- **Hydrotech Beam resumed** — Antoine approved Phase 2. DOE Phase 1 gate check failed: 39/51 solved, 0 fully feasible, mass=NaN on all trials
+- **Mass NaN Fix committed** — `580ed65`. Root cause: `solve_simple_workflow()` tried reading mass via stale `p173` expression after part switching. Fix: extract mass right after geometry rebuild using `MeasureManager.NewMassProperties()`
+- **DEC-HB-012** — Displacement constraint relaxed 10→20mm (CEO approved, dummy case)
+- Sub-agent issues: Tech Lead hit 200K token limit (×2), NX Expert couldn't post to Slack (channel routing issue for spawned agents)
+- **Lesson:** Sub-agents need leaner prompts; Slack channel routing broken for spawned sessions

hq/workspaces/manager/memory/archive/2026-02-19.md

@@ -0,0 +1,12 @@
+# Archive: 2026-02-19
+
+**Original:** Nightly Digestion — OP_11 (Incremental)
+
+## Key Facts Preserved
+- Updated MEMORY.md with Project Standard review package status + Auditor MVS recommendation
+- Captured lessons: Secretary/sub-agent Slack posting issues, Auditor review value
+- Updated PROJECT_STATUS.md with all 3 active projects
+- Fixed: Webster missing from AGENTS.md Agent Directory table
+- Noted: Auditor blocked on P-Adaptive-Isogrid review since Feb 16
+- Observation: Project Standard multi-agent orchestration worked well — taskboard protocol maturing
+- Issue flagged: mc-update.sh `list` command doesn't work

hq/workspaces/manager/memory/archive/2026-02-20.md

@@ -0,0 +1,9 @@
+# Archive: 2026-02-20
+
+**Original:** Nightly Digestion — OP_11 (Incremental)
+
+## Key Facts Preserved
+- **Adaptive Isogrid Plate Lightweighting** project discovered — full spec + 3 reviews in `shared/war-room-isogrid/`
+- Webster hit web_search API key issue (TASK-001 blocked)
+- PROJECT_STATUS.md and MEMORY.md updated with Isogrid project
+- No Antoine corrections to capture

hq/workspaces/manager/memory/archive/2026-02-21.md

@@ -0,0 +1,9 @@
+# Archive: 2026-02-21
+
+**Original:** Nightly Digestion — OP_11 (Incremental)
+
+## Key Facts Preserved
+- No new activity. Weekend quiet period.
+- war-room-overhaul/repo-structure.md created Feb 20 (repo audit artifact)
+- Outstanding: Webster web_search API key still unresolved
+- Outstanding: Auditor P-Adaptive-Isogrid block since Feb 16 still unresolved

hq/workspaces/manager/memory/archive/2026-02-22.md

@@ -0,0 +1,10 @@
+# Archive: 2026-02-22
+
+## Key Facts Preserved
+- MIND_MAP_AUDIT.md (16KB) created Feb 21 — comprehensive audit of Excalidraw master mind map vs actual codebase/docs. 385 text nodes reviewed.
+- No project activity — weekend quiet period.
+- Tech Lead legacy files from 2025 flagged for consolidation (not yet done).
+- All infrastructure paths verified.
+
+## Original Context
+Weekend digestion. No new Antoine corrections. Three projects awaiting CEO input (Hydrotech, Project Standard, Isogrid).

hq/workspaces/manager/memory/archive/2026-02-22_to_2026-02-28_idle-and-aom-summary.md

@@ -0,0 +1,31 @@
+# 2026-02-22 to 2026-02-28 — Archived Digestion Summary
+
+## Why archived
+These daily notes were older than the 30-day active-memory retention window. They covered one major AOM/migration planning session plus several repetitive idle digestion passes.
+
+## Key retained signal
+
+### 2026-02-22 — High-value session
+- Antoine reviewed AOM status and drove a major documentation push.
+- AOM Phase 3, 4, and 5 were completed that day, including digestion/context-engineering material and maintenance rules.
+- Atomizer was explicitly moved toward a tool-agnostic architecture.
+- V2 migration direction was established: new V2 repo, documentation-first, Obsidian remains source during transition.
+- Key recorded decisions from that session:
+  - DEC-030: tool-agnostic architecture approved
+  - DEC-032: create new V2 repo instead of cleaning V1
+  - DEC-033: documentation first, code later
+  - DEC-021: AOM stays in Obsidian until migration
+- At that time, `sessions_spawn` was blocked by pairing issues; delegation reliability was an active infrastructure concern.
+
+### 2026-02-26 to 2026-02-28 — Repetitive idle digestion
+- No new agent activity across HQ workspaces.
+- Core projects remained blocked on CEO input.
+- Repeated nightly notes mainly updated timestamps/blocker ages without adding new knowledge.
+
+## What was intentionally not retained verbatim
+- Repetitive "no activity" nightly entries from Feb 26–28.
+- Daily timestamp-only updates already superseded by higher-level memory and project status docs.
+
+## Persistent lessons preserved elsewhere
+- Idle digestion can create low-value repetition; cadence/idle-mode tuning remains a candidate OP_11 improvement pending CEO approval.
+- Project bottlenecks were mostly decision/approval bound, not execution bound.

hq/workspaces/manager/memory/archive/2026-02-23_to_2026-02-25.md

@@ -0,0 +1,16 @@
+# Archive Summary — 2026-02-23 to 2026-02-25
+
+Compressed from daily digestion notes after 30-day retention threshold.
+
+## Key retained facts
+- **AOM / Atomizer V2 Migration** became the dominant workstream and reached completion state by Feb 24, including coherence audit, preflight fixes, and HQ separation completion (DEC-037).
+- **AOM V2 planning artifacts** were produced and reviewed, including the V2 migration audit and code review in `shared/reviews/`.
+- **CEO decisions were pending** across several projects during this window, creating a broad holding pattern.
+- **Sub-agent spawning instability** was observed around Feb 22, then downgraded from full blocker to intermittent issue after successful auditor execution.
+- **Arsenal Development Plan** and **Arsenal Risk Analysis** were added on Feb 25 as new project-level artifacts in Technical Lead and Auditor workspaces.
+- **Chronic blocked items noted at the time:** P-Adaptive-Isogrid follow-up, Webster web search/API access, and several CEO-approval waits.
+
+## Why originals were compressed
+- These entries were primarily incremental digestion/admin state.
+- Reusable project facts were already preserved in long-term memory and project/review artifacts.
+- Detailed day-by-day repetition was no longer worth keeping as standalone daily files.

hq/workspaces/manager/memory/archive/2026-02-26_to_2026-03-12_idle-period.md

@@ -0,0 +1,19 @@
+# Archive Summary — Idle Period: 2026-02-26 to 2026-03-12
+
+**15 consecutive nightly digestion cycles with zero workspace activity.**
+
+All workspaces (manager, secretary, technical-lead, optimizer, study-builder, auditor, webster) had zero file changes throughout this period. Each nightly OP_11 cycle confirmed the same state.
+
+## Actions Taken During Period
+- **Mar 8**: Archived `2026-02-08.md` and `2026-02-09.md` (30+ days old)
+- **Mar 12**: Archived `2026-02-10.md` (30 days old)
+- Path verifications performed nightly — all OK throughout
+
+## Standing State (unchanged from Feb 25)
+- 3 projects awaiting CEO input: Hydrotech (blocked on dalidou pull), Project Standard (MVS vs full spec decision), Isogrid (CEO review)
+- Webster blocked on web_search API key (needs Mario)
+- Auditor Isogrid review moot until CEO reviews spec
+
+## EVOLVE Recommendation (first raised Mar 8)
+- **OP_11 idle-mode amendment proposed**: When no workspace file changes for >7 consecutive days, switch digestion to weekly-only. Resume nightly when activity resumes. 15 consecutive near-identical cycles confirm this need.
+- Requires CEO approval per protocol change rules.

hq/workspaces/manager/memory/archive/2026-03-01_to_2026-03-12_idle-digestion.md

@@ -0,0 +1,34 @@
+# 2026-03-01 to 2026-03-12 — Idle Digestion Archive
+
+## Summary
+This archive compresses twelve consecutive nightly OP_11 digestion entries from an extended idle period. Across this span, no substantive project or agent-workspace activity resumed. The repeated outcomes were consistent:
+
+- No new activity across agent workspaces
+- No CEO corrections or new directives
+- No contradictions found in active manager memory
+- Key operational paths remained valid when spot-checked
+- Main open items remained unchanged: Hydrotech Beam, Atomizer Project Standard, and Adaptive Isogrid awaiting CEO input
+
+## Notable Actions Preserved
+
+### 2026-03-08
+- Archived `2026-02-08.md` and `2026-02-09.md` after they crossed the 30-day retention threshold.
+- Recorded a process-improvement observation: nightly digestion during long idle stretches was producing repetitive low-value logs.
+
+### 2026-03-11
+- Elevated the idle-noise pattern into a formal amendment proposal for OP_11:
+  - If no workspace file changes occur for 7+ consecutive days, digestion frequency should drop from nightly to weekly until activity resumes.
+  - This remains a proposal only and would require CEO approval.
+
+### 2026-03-12
+- Archived `2026-02-10.md` after it crossed the 30-day retention threshold.
+- Confirmed again that the March 1–12 logs themselves were mostly boilerplate digestion output and suitable for later compression.
+
+## Operational State During This Window
+- Team status: effectively idle
+- No broken references found in the spot-checked manager/shared operational paths
+- No documentation changes required during the period
+- No new domain/project knowledge needed promotion to long-term memory
+
+## Why These Files Were Compressed
+These twelve daily notes were all digestion-only entries from the same idle stretch and did not each justify separate active-memory retention. This archive preserves the meaningful signal while removing repetitive noise from the live memory directory.

hq/workspaces/nx-expert/AGENTS.md

@@ -1,9 +1,9 @@
 ## Cluster Communication
-You are part of the Atomizer Agent Cluster. Each agent runs as an independent process.
+You are part of the Atomizer Agent Cluster and operate through OpenClaw-native orchestration.
 
-### Receiving Tasks (Hooks Protocol)
-You may receive tasks delegated from the Manager or Tech Lead via the Hooks API.
-**These are high-priority assignments.** See `/home/papa/atomizer/workspaces/shared/HOOKS-PROTOCOL.md` for full details.
+### Receiving Tasks
+You may receive tasks delegated from the Manager or another specialist through the active OpenClaw messaging/orchestration path.
+These are high-priority assignments. See `/home/papa/atomizer/workspaces/shared/CLUSTER.md` for the current coordination model.
 
 ### Status Reporting
 After completing tasks, **append** a status line to `/home/papa/atomizer/workspaces/shared/project_log.md`:
@@ -14,8 +14,8 @@ Do NOT edit `PROJECT_STATUS.md` directly — only the Manager does that.
 
 ### Rules
 - Read `shared/CLUSTER.md` to know who does what
-- Always respond to Discord messages (NEVER reply NO_REPLY to Discord)
-- Post results back in the originating Discord channel
+- Treat incoming channel messages as real user/team messages that need a real response
+- Route visible delivery through the active channel/message path, not Discord-specific assumptions
 
 # AGENTS.md — NX Expert Workspace
 
@@ -70,14 +70,12 @@ Source filters: `"nxopen"`, `"nxopentse"`, `"pynastran"`
 - **Project channels** — When summoned for NX-specific questions
 - Use `sessions_send` for direct agent communication
 - Tag with 🖥️ or @nx-expert
-### Discord Messages (via Bridge)
-Messages from Discord arrive formatted as: `[Discord #channel] username: message`
-- These are REAL messages from team members or users — respond to them conversationally
-- Treat them exactly like Slack messages
+### Channel Messages
+Messages from the active chat/channel path are real user or team messages and should be handled conversationally.
 - If someone says hello, greet them back. If they ask a question, answer it.
-- Do NOT treat Discord messages as heartbeats or system events
-- Your reply will be routed back to the Discord channel automatically
-- **⚠️ CRITICAL: NEVER reply NO_REPLY or HEARTBEAT_OK to Discord messages. Discord messages are ALWAYS real conversations that need a response.**
+- Do NOT treat channel messages as heartbeats or system events
+- Reply normally through the active messaging path
+- **⚠️ CRITICAL: Do not dismiss real channel messages as heartbeats or noise. If someone is talking to you, answer them.**
 
 
 ## Key Rules
@@ -98,7 +96,19 @@ CALLER=nx-expert bash /home/papa/atomizer/workspaces/shared/skills/taskboard/tas
 When working on a task:
 - Update status to `in-progress`: `CALLER=nx-expert bash /home/papa/atomizer/workspaces/shared/skills/taskboard/taskboard.sh update TASK-XXX --status in-progress --note "Started work"`
 - When done, set to `review`: `CALLER=nx-expert bash /home/papa/atomizer/workspaces/shared/skills/taskboard/taskboard.sh update TASK-XXX --status review --note "Deliverable posted to #channel"`
-- Post deliverables to the Discord channel specified in the task
+- Post deliverables through the active channel specified in the task/workflow
 - Always append progress to `shared/project_log.md`
 
 See `shared/skills/taskboard/SKILL.md` for full documentation.
+
+
+## Channel Posting Rules (MANDATORY — READ EVERY SESSION)
+Follow current shared channel-routing rules and Manager direction for visible delivery
+
+**CRITICAL RULES:**
+1. You may see other agents' visible updates — use them for context
+2. Do not jump into another agent's conversation unless you were directly asked or routed in
+3. You MUST NOT post social chatter ("great work", "looking forward to...", "👍", acknowledgments)
+4. You ONLY post: deliverables, task status, concerns/blockers, or direct answers to Manager/Antoine
+5. Before any visible post, ask: "Does Antoine need to see this?" — if not, prefer logging/reporting internally
+6. Every unnecessary post wastes CEO's API budget — silence is the default

hq/workspaces/optimizer/AGENTS.md

@@ -1,9 +1,9 @@
 ## Cluster Communication
-You are part of the Atomizer Agent Cluster. Each agent runs as an independent process.
+You are part of the Atomizer Agent Cluster and operate through OpenClaw-native orchestration.
 
-### Receiving Tasks (Hooks Protocol)
-You may receive tasks delegated from the Manager or Tech Lead via the Hooks API.
-**These are high-priority assignments.** See `/home/papa/atomizer/workspaces/shared/HOOKS-PROTOCOL.md` for full details.
+### Receiving Tasks
+You may receive tasks delegated from the Manager or another specialist through the active OpenClaw messaging/orchestration path.
+These are high-priority assignments. See `/home/papa/atomizer/workspaces/shared/CLUSTER.md` for the current coordination model.
 
 ### Status Reporting
 After completing tasks, **append** a status line to `/home/papa/atomizer/workspaces/shared/project_log.md`:
@@ -14,8 +14,8 @@ Do NOT edit `PROJECT_STATUS.md` directly — only the Manager does that.
 
 ### Rules
 - Read `shared/CLUSTER.md` to know who does what
-- Always respond to Discord messages (NEVER reply NO_REPLY to Discord)
-- Post results back in the originating Discord channel
+- Treat incoming channel messages as real user/team messages that need a real response
+- Route visible delivery through the active channel/message path, not Discord-specific assumptions
 
 # AGENTS.md — Optimizer Workspace
 
@@ -42,14 +42,12 @@ Do NOT edit `PROJECT_STATUS.md` directly — only the Manager does that.
 - Hand off study designs to Study Builder
 - Submit plans/results to Auditor for review
 - **Post updates to project channels** — keep the team informed
-### Discord Messages (via Bridge)
-Messages from Discord arrive formatted as: `[Discord #channel] username: message`
-- These are REAL messages from team members or users — respond to them conversationally
-- Treat them exactly like Slack messages
+### Channel Messages
+Messages from the active chat/channel path are real user or team messages and should be handled conversationally.
 - If someone says hello, greet them back. If they ask a question, answer it.
-- Do NOT treat Discord messages as heartbeats or system events
-- Your reply will be routed back to the Discord channel automatically
-- **⚠️ CRITICAL: NEVER reply NO_REPLY or HEARTBEAT_OK to Discord messages. Discord messages are ALWAYS real conversations that need a response.**
+- Do NOT treat channel messages as heartbeats or system events
+- Reply normally through the active messaging path
+- **⚠️ CRITICAL: Do not dismiss real channel messages as heartbeats or noise. If someone is talking to you, answer them.**
 
 
 ## Agent Directory
@@ -79,7 +77,19 @@ CALLER=optimizer bash /home/papa/atomizer/workspaces/shared/skills/taskboard/tas
 When working on a task:
 - Update status to `in-progress`: `CALLER=optimizer bash /home/papa/atomizer/workspaces/shared/skills/taskboard/taskboard.sh update TASK-XXX --status in-progress --note "Started work"`
 - When done, set to `review`: `CALLER=optimizer bash /home/papa/atomizer/workspaces/shared/skills/taskboard/taskboard.sh update TASK-XXX --status review --note "Deliverable posted to #channel"`
-- Post deliverables to the Discord channel specified in the task
+- Post deliverables through the active channel specified in the task/workflow
 - Always append progress to `shared/project_log.md`
 
 See `shared/skills/taskboard/SKILL.md` for full documentation.
+
+
+## Channel Posting Rules (MANDATORY — READ EVERY SESSION)
+Follow current shared channel-routing rules and Manager direction for visible delivery
+
+**CRITICAL RULES:**
+1. You may see other agents' visible updates — use them for context
+2. Do not jump into another agent's conversation unless you were directly asked or routed in
+3. You MUST NOT post social chatter ("great work", "looking forward to...", "👍", acknowledgments)
+4. You ONLY post: deliverables, task status, concerns/blockers, or direct answers to Manager/Antoine
+5. Before any visible post, ask: "Does Antoine need to see this?" — if not, prefer logging/reporting internally
+6. Every unnecessary post wastes CEO's API budget — silence is the default

hq/workspaces/secretary/AGENTS.md

@@ -1,9 +1,9 @@
 ## Cluster Communication
-You are part of the Atomizer Agent Cluster. Each agent runs as an independent process.
+You are part of the Atomizer Agent Cluster.
 
-### Receiving Tasks (Hooks Protocol)
-You may receive tasks delegated from the Manager or Tech Lead via the Hooks API.
-**These are high-priority assignments.** See `/home/papa/atomizer/workspaces/shared/HOOKS-PROTOCOL.md` for full details.
+### Receiving Tasks
+You may receive tasks delegated from the Manager via native OpenClaw orchestration (`sessions_spawn` / `sessions_send`) or via the current channel routing setup.
+These are high-priority assignments.
 
 ### Status Reporting
 After completing tasks, **append** a status line to `/home/papa/atomizer/workspaces/shared/project_log.md`:
@@ -14,8 +14,8 @@ Do NOT edit `PROJECT_STATUS.md` directly — only the Manager does that.
 
 ### Rules
 - Read `shared/CLUSTER.md` to know who does what
-- Always respond to Discord messages (NEVER reply NO_REPLY to Discord)
-- Post results back in the originating Discord channel
+- Treat inbound user/channel messages as real work, not heartbeats
+- Post results back in the originating channel/thread using the current routing and `message` tool where applicable
 
 # AGENTS.md — Secretary Workspace
 
@@ -35,14 +35,12 @@ Do NOT edit `PROJECT_STATUS.md` directly — only the Manager does that.
 - DMs from Antoine come to you — triage and route
 - Use `sessions_send` to check with other agents
 - Format updates using the dashboard template
-### Discord Messages (via Bridge)
-Messages from Discord arrive formatted as: `[Discord #channel] username: message`
-- These are REAL messages from team members or users — respond to them conversationally
-- Treat them exactly like Slack messages
-- If someone says hello, greet them back. If they ask a question, answer it.
-- Do NOT treat Discord messages as heartbeats or system events
-- Your reply will be routed back to the Discord channel automatically
-- **⚠️ CRITICAL: NEVER reply NO_REPLY or HEARTBEAT_OK to Discord messages. Discord messages are ALWAYS real conversations that need a response.**
+### Inbound Channel Messages
+Inbound channel messages are real user/team messages, not heartbeats.
+- Respond conversationally when a response is needed
+- Treat them according to the current workspace routing rules
+- If delivery is required, use the active channel path/tooling rather than assuming an automatic Discord bridge
+- Do NOT confuse real messages with system events or heartbeats
 
 
 ## Responsibilities
@@ -72,7 +70,7 @@ You are the **final step** in every orchestration chain. After Manager completes
    - Key findings/decisions
    - Any follow-up items
 
-4. **Post to Discord `#reports`** — this is the official record for Antoine
+4. **Post to `#reports` via the active messaging path** — this is the official record for Antoine
 
 5. **Update your task status** on the taskboard:
    ```bash
@@ -99,7 +97,19 @@ CALLER=secretary bash /home/papa/atomizer/workspaces/shared/skills/taskboard/tas
 - **NEVER modify API keys or credentials**
 
 ### ⚠️ CRITICAL: No Retry Loops
-If you fail to post to a Discord channel, **do NOT retry repeatedly or DM Antoine about it.** 
+If you fail to post to a channel, **do NOT retry repeatedly or DM Antoine about it.** 
 - Try once. If it fails, log the failure in `project_log.md` and move on.
-- Do NOT send status updates about "Discord being down" to Antoine's DM.
+- Do NOT send status updates about routing/outbound delivery being down to Antoine's DM.
 - If a deliverable can't be posted, save it to a file in your `memory/` folder and note it for next session.
+
+
+## Channel Posting Rules (MANDATORY — READ EVERY SESSION)
+Use the active routing/message tools and current workspace rules.
+
+**CRITICAL RULES:**
+1. You CAN see other agents' visible posts — use them for context
+2. You MUST NOT respond to other agents' posts unless you were directly @mentioned/named or routing requires it
+3. You MUST NOT post social chatter ("great work", "looking forward to...", "👍", acknowledgments)
+4. You ONLY post: deliverables, task status, concerns/blockers, or direct answers to Manager/Antoine
+5. Before any visible post, ask: "Does Antoine need to see this?" — if NO, stay silent
+6. Every unnecessary post wastes CEO attention and budget — silence is the default

hq/workspaces/secretary/memory/pending.md

@@ -4,15 +4,15 @@
 - **Summary:** The SOTA review for the P-Adaptive-Isogrid tool is complete. It identified a **critical risk**: the tool is completely blind to buckling, a primary failure mode.
 - **Plan:** A prioritized list of 5 improvements has been established, with an analytical buckling check as the highest priority.
 - **Deliverable:** `/home/papa/atomizer/hq/condensations/2026-02-16-isogrid-sota-review.md`
-- **Action:** Inform Antoine as soon as Discord communication is restored.
+- **Action:** Inform Antoine when the current messaging/delivery path is confirmed working again.
 
 ## Thermal Analysis Report
 - **Summary:** A thermal analysis report has been summarized and is ready for review.
-- **Action:** Post to #reports channel once Discord communication is restored.
+- **Action:** Post to #reports once the current messaging/delivery path is confirmed working again.
 
 ## Delegation Task
 - **Summary:** A delegation task has completed but could not post its report.
-- **Action:** Post to relevant channel once Discord communication is restored.
+- **Action:** Post to the relevant channel once the current messaging/delivery path is confirmed working again.
 
 ## Hydrotech Beam Project — Status
 - Technical gaps resolved, displacement constraint relaxed 10mm → 20mm (DEC-HB-012, CEO approved)
@@ -20,5 +20,5 @@
 - **Next:** Pull fix on dalidou, test single trial, re-run full DOE with 20mm constraint
 - **Updated:** 2026-02-14 (digestion cycle)
 
-## System Alert: Discord Communication Failure
-- The `message` tool is consistently failing. This is preventing automated reports and manual messages from being sent. Needs investigation.
+## System Alert: Messaging / Delivery Failure
+- Historical note from the earlier outage window: the `message` tool was failing during that capture period, preventing automated reports and manual messages from being sent. Treat these pending items as old delivery debt to verify/release, not as proof of an active current outage.

hq/workspaces/shared/CLUSTER.md

@@ -15,56 +15,32 @@
 
 ## Inter-Agent Communication
 
-Each agent runs as an independent OpenClaw gateway. To send a message to another agent:
+Use **OpenClaw native orchestration**, not legacy hooks/curl patterns.
 
-```bash
-curl -s -X POST http://127.0.0.1:PORT/hooks/agent \
-  -H "Content-Type: application/json" \
-  -H "Authorization: Bearer 31422bb39bc9e7a4d34f789d8a7cbc582dece8dd170dadd1" \
-  -d '{"message": "your message", "agentId": "AGENT_ID"}'
-```
+### Primary methods
+- `sessions_spawn` — delegate substantial work to a specialist
+- `sessions_send` — steer or clarify an active session
+- `subagents(action=list)` — check status only when needed
 
-### Examples
+### Messaging / delivery
+- Use the `message` tool for visible updates to Slack or other configured channels
+- Keep specialist-to-specialist coordination internal unless Antoine needs to see it
+- Manager is responsible for visible orchestration summaries in the originating channel/thread
 
-```bash
-# Report to manager
-curl -s -X POST http://127.0.0.1:18800/hooks/agent \
-  -H "Content-Type: application/json" \
-  -H "Authorization: Bearer 31422bb39bc9e7a4d34f789d8a7cbc582dece8dd170dadd1" \
-  -d '{"message": "Status update: FEA analysis complete", "agentId": "manager"}'
+## Channel Ownership
 
-# Delegate to tech-lead
-curl -s -X POST http://127.0.0.1:18804/hooks/agent \
-  -H "Content-Type: application/json" \
-  -H "Authorization: Bearer 31422bb39bc9e7a4d34f789d8a7cbc582dece8dd170dadd1" \
-  -d '{"message": "Please review the beam optimization study", "agentId": "technical-lead"}'
-
-# Ask webster for research
-curl -s -X POST http://127.0.0.1:18828/hooks/agent \
-  -H "Content-Type: application/json" \
-  -H "Authorization: Bearer 31422bb39bc9e7a4d34f789d8a7cbc582dece8dd170dadd1" \
-  -d '{"message": "Find papers on topology optimization", "agentId": "webster"}'
-```
-
-## Discord Channel Ownership
-
-- **Manager**: #ceo-office, #announcements, #daily-standup, #active-projects, #agent-logs, #inter-agent, #general, #hydrotech-beam
-- **Tech Lead**: #technical, #code-review, #fea-analysis
-- **Secretary**: #task-board, #meeting-notes, #reports, #knowledge-base, #lessons-learned, #it-ops
-- **NX Expert**: #nx-cad
-- **Webster**: #literature, #materials-data
-- **Auditor, Optimizer, Study Builder**: DM + hooks (no dedicated channels)
-
-## Slack (Manager only)
-
-Manager also handles Slack channels: #all-atomizer-hq, #secretary, etc.
+Current operational home channels:
+- **Manager**: `#hq`, `#all-atomizer-hq`, `#agent-ops`, `#social`
+- **Secretary**: `#secretary`, `#reports`
+- **Technical Lead**: `#technical-lead`
+- **Shared specialist summon channel**: `#all-atomizer-hq` via @mentions / routing rules
 
 ## Rules
 
-1. Always respond to Discord messages — NEVER reply NO_REPLY
-2. When delegating, be specific about what you need
-3. Post results back in the originating Discord channel
-4. Use hooks API for inter-agent communication
+1. Use native OpenClaw tools for inter-agent communication
+2. When delegating, be specific about scope, expected output, and deadline
+3. Post results back in the originating Slack channel/thread when user-visible delivery is needed
+4. Do not rely on legacy Discord bridge assumptions unless a task explicitly targets a Discord environment
 
 ## Response Arbitration (Anti-Collision)
 

hq/workspaces/shared/DISCORD-RULES.md

@@ -0,0 +1,30 @@
+# Discord Posting Rules (ALL AGENTS — MANDATORY)
+
+## Core Principle
+You can **see** everything on Discord. You must **not respond** unless your response is substantive and necessary.
+
+## You MUST respond when:
+- **Manager or Antoine directly asks you** something (by @mention or name)
+- You have a **deliverable** to post (analysis, research, code, report, findings)
+- You need to **flag a concern** — a technical error, blocker, risk, or disagreement with another agent's work
+- You have a **status update** on an assigned task
+
+## You MUST NOT respond when:
+- Another agent posts an intro, update, or deliverable — **do not comment, react, or acknowledge**
+- You want to say "great work", "looking forward to collaborating", "👍", "exactly" — **NO social chatter**
+- You were not @mentioned or named — **silence is the default**
+- The conversation doesn't require your specific expertise — **stay quiet**
+- You want to echo or rephrase what someone else said — **add value or add nothing**
+
+## The Test
+Before posting, ask: **"Does Antoine need to see this?"**
+- If YES → post it
+- If NO → respond with NO_REPLY (do not post)
+
+## Inter-agent coordination
+- For back-and-forth discussion with other agents, use `sessions_send` / `sessions_spawn` (internal, no Discord cost)
+- Discord is the **company bulletin board** — post results, not conversations
+- Reading other agents' posts gives you context — use it silently, don't reply to it
+
+## Token Budget
+Every Discord response costs API tokens that Antoine pays for. Unnecessary responses = wasted money. When in doubt, **don't post**.

hq/workspaces/shared/PROJECT_STATUS.md

@@ -1,29 +1,40 @@
 # Project Status Dashboard
-Updated: 2026-02-23 04:00 AM (Nightly Digestion OP_11)
+Updated: 2026-04-03 04:00 AM (Nightly Digestion OP_11)
 
 ## Active Projects
 
-### 📦 AOM / V2 Migration (NEW — Feb 22)
-- **Phase:** Documentation complete, migration plan reviewed
-- **Status:** 🟡 AWAITING CEO DECISIONS (6 items)
-- **What happened:** AOM completed (48 docs, ~8,830 lines, zero NX-only assumptions). Tool-agnostic architecture approved (DEC-030). V2 repo created at `192.168.86.50:3000/Antoine/Atomizer-V2` (DEC-032). Migration masterplan written + audited (11 findings addressed in V2 plan, 12-day timeline).
-- **Deliverables ready:** AOM (Obsidian), V2 Migration Masterplan V2, Auditor audit, code review
-- **Location:** Obsidian vault `P-Atomizer-Operating-Manual/`, `shared/reviews/`
-- **Pending CEO decisions:** License type, GitHub name, Obsidian sync strategy, HQ separation, projects/ exclusion, repo visibility, timing to start
-- **Owner:** Manager
+### 🔭 GigaBIT M1 — Reference Frame Stiffness Characterization
+- **Phase:** Active — Model Setup
+- **Client:** StarSpec (Adyn Miles)
+- **Project ID:** P04-GigaBIT-M1
+- **Created:** 2026-03-04
+- **Objective:** Determine minimum stiffness requirements for StarSpec's reference frame at 5 mirror support interface points. Quantify WFE sensitivity to frame compliance.
+- **Method:** Hybrid B+D (sensitivity + stiffness sweep), SOL 101, ~42 runs total
+- **Key numbers:** ΔWFE budget ≤1.0 nm RMS, system allocation ≤22 nm RMS (contract), mechanical target <14 nm RMS
+- **Location:** `/home/papa/repos/Atomizer/projects/gigabit-m1-frame-stiffness/`
+- **PKM:** `/home/papa/obsidian-vault/2-Projects/P04-GigaBIT-M1/`
+- **Owner:** Antoine (direct)
+
+### ✅ P-Zernike-Validation (GigaBIT M1 Risk Reduction)
+- **Phase:** ✅ COMPLETE (2026-03-09)
+- **What:** Zernike pipeline V&V — 18 test cases pass, cross-validated against prysm v0.21.1 to machine precision (<1e-13 nm)
+- **Commits:** `f9373be` (round-trip validation), `075ad36` (prysm cross-validation + report figures)
+- **Requested by:** Adyn Miles (StarSpec) for risk reduction before M2/M3 ordering
+- **Owner:** Antoine (direct)
 
 ### 🔩 Hydrotech Beam — Optimization
 - **Phase:** DOE Phase 1 complete, awaiting Phase 2 (TPE)
 - **Status:** ⏸️ BLOCKED — Mass NaN fix committed (580ed65), needs pull + test on dalidou
 - **Key numbers:** 39/51 trials solved, 0 fully feasible (displacement), constraint relaxed to 20mm
 - **Next:** Antoine pulls fix on dalidou → test single trial → rerun DOE → Phase 2 TPE
+- **Note:** Lower priority — Antoine focused on GigaBIT M1 work
 - **Owner:** Tech Lead + Study Builder
 
 ### 📐 Atomizer Project Standard
 - **Phase:** Review complete, awaiting CEO decision
 - **Status:** 🟡 AWAITING APPROVAL
 - **Deliverables ready:** Full spec, tech-lead review, auditor audit, secretary synthesis
-- **Location:** `shared/standardization/`
+- **Location:** `/home/papa/atomizer/workspaces/shared/standardization/`
 - **Key decision:** Auditor recommends MVS (minimal viable standard) over full spec. Antoine to decide.
 - **Owner:** Manager
 
@@ -31,24 +42,31 @@ Updated: 2026-02-23 04:00 AM (Nightly Digestion OP_11)
 - **Phase:** Technical spec locked, reviews complete
 - **Status:** 🟡 AWAITING CEO REVIEW
 - **Deliverables ready:** Full technical spec (32KB), optimizer review, tech-lead review, webster review
-- **Location:** `shared/war-room-isogrid/`
-- **Architecture:** Python Brain + NX Hands + Atomizer Manager (semi-automated isogrid optimization)
+- **Location:** `/home/papa/atomizer/workspaces/shared/war-room-isogrid/`
 - **Next:** CEO review → implementation planning
 - **Owner:** Manager / Tech Lead
 
-### 🔬 Material Research (M2 Mirror Trade Study)
-- **Phase:** Research complete
-- **Status:** ✅ Data collected (Zerodur, Clearceram-Z HS, Invar 36, SiC)
-- **Next:** Awaiting project context to produce recommendation
-- **Owner:** Webster
+### 📦 Atomizer V2 Migration
+- **Phase:** ✅ COMPLETE (2026-02-23)
+- **Post-migration:** V1 tagged `v1-final`, kept active. AOM→Obsidian auto-sync via crontab. Phase 6 (archive V1) deferred until Antoine switches production work.
+- **Remaining roadmap:** Items 4-9 in ROADMAP-NEXT.md
+
+### 🏢 Atomizer/HQ Separation
+- **Phase:** ✅ COMPLETE (2026-02-23)
+- **Decision:** DEC-037
+
+## Infrastructure Updates
+- **Tier 2 dev workflow** added (2026-03-07, commit `b3162aa`): Windows test runner (`run_tests.bat`), result sync via Syncthing, JSON result capture, `--quick` mode for NX-independent tests
+- **Daily HQ syncs** continue (automated commits through Mar 12)
 
 ## Outstanding Blockers
-- **Auditor** blocked on P-Adaptive-Isogrid review since Feb 16 (needs Tech Lead response)
-- **Webster** web_search API key missing (needs Mario, since Feb 19)
-- **Sub-agent spawning** intermittently broken ("pairing required" error, Feb 22)
-- **4 projects** simultaneously awaiting CEO input — triage needed
+- **3 projects** awaiting CEO input (Hydrotech, Project Standard, Isogrid) — deprioritized while Antoine focuses on GigaBIT M1
+- No newly verified infrastructure blockers during this digestion pass; prior Webster search-tool/API-key issue appears historical and should only be reinstated if it reproduces
 
-## Recent Completions
-- 2026-02-22: AOM 100% complete (48 docs), tool-agnostic architecture, V2 migration plan + audit
-- 2026-02-18: Project standardization package assembled and reviewed
-- 2026-02-17: System test orchestration validated
+## Mission Control — Stale Tasks
+Several MC tasks have been in `in_progress` or `review` since mid-February with no updates:
+- ATZ-2f1634: P-Adaptive-Isogrid (in_progress)
+- ATZ-74f02a: Atomizer Overhaul (in_progress)
+- ATZ-839392: Project Standard — Introspection (in_progress)
+- ATZ-749aac, ATZ-d3fce9, ATZ-05c017, ATZ-21695d: all in review
+These should be resolved (completed or closed) when Antoine returns to HQ work.

hq/workspaces/shared/reviews/v2-migration-coherence-audit.md

@@ -0,0 +1,417 @@
+# Cross-Document Coherence Audit — V2 Migration Pre-Flight
+**Date:** 2026-02-23  
+**Auditor:** Auditor (Subagent)  
+**Documents Reviewed:** 5 source document sets, 48 AOM docs (sampled), 4 pillars  
+**Scope:** Pre-migration alignment verification for Atomizer V2 migration
+
+---
+
+## Executive Summary
+
+**VERDICT: CONDITIONAL PASS — Proceed with Cautions**
+
+The V2 migration can proceed, but **not as-is**. Three critical contradictions and five major gaps require resolution before Phase 1 execution. The documents are directionally aligned on architecture and tool strategy, but they diverge on:
+
+1. **Contracts implementation timing** (contradictory)
+2. **Project Standard integration scope** (under-specified in Arsenal V3)
+3. **Structural path definitions** (contradictions between Arsenal V3 and Migration Plan V3.1)
+
+### Top 3 Findings
+
+| # | Finding | Severity | Impact |
+|---|---------|----------|--------|
+| 1 | **Contracts deferral conflict:** Arsenal V3 says "contracts are canonical in architecture doc," Migration Plan V3.1 says "stubs only at P0, implement post-migration" — Architecture doc says "contracts are NEW" (not existing). This creates a circular dependency. | 🔴 CRITICAL | Phase 1 cannot implement contracts that don't exist yet |
+| 2 | **Project Standard orphaned in Arsenal V3:** Migration Plan V3.1 added full Project Standard integration (§5.5, templates/, init script) as P1 deliverables. Arsenal V3 Final (the architecture source) doesn't mention Project Standard at all — no templates folder, no init script, no study paths at `03-studies/`. | 🔴 CRITICAL | Arsenal V3 is not the complete architecture — migration plan adds 15+ deliverables not defined upstream |
+| 3 | **NX consolidation path mismatch:** Arsenal V3 says `atomizer/processors/geometry/nx_geometry.py`, Migration V3 says `atomizer/nx/` as consolidated NX home with journals/ subdirectory. Both are present in V2 structure tree but with different organizational philosophies. | 🟡 MAJOR | NX code may be split across two locations creating maintenance confusion |
+
+### Recommendation
+
+**APPROVE migration with mandatory pre-Phase-1 actions:**
+
+1. **Resolve contracts chicken-and-egg:** Either (a) write contract stub definitions NOW in architecture doc before migration starts, OR (b) accept that contracts are post-migration work and remove all P0/P1 references to implementing them
+2. **Backport Project Standard to Arsenal V3:** Update Arsenal V3 Final (the canonical architecture) to include Project Standard as a first-class component with templates/, init script, and engine --project-root support
+3. **Consolidate NX strategy:** CEO decision: Is NX a processor alongside others (`processors/geometry/nx_geometry.py`) OR is it a special legacy subsystem (`nx/` with all NX code consolidated)? Both structures exist in the plan — pick one.
+
+With these three corrections, the migration is **sound and executable**.
+
+---
+
+## A. Structural Alignment
+
+**Question:** Does the V2 repo structure in the migration plan match what Arsenal V3 defines?
+
+### Alignment ✅
+
+| Component | Arsenal V3 Final | Migration Plan V3.1 | Status |
+|-----------|------------------|---------------------|--------|
+| Three-layer architecture | `contracts/`, `processors/`, `orchestrator/` | ✅ Present in V2 tree | ✅ MATCH |
+| Optimization engine | `atomizer/optimization/` | ✅ Present | ✅ MATCH |
+| Extractors | `atomizer/extractors/` | ✅ Present | ✅ MATCH |
+| Spec/config | `atomizer/spec/` | ✅ Present | ✅ MATCH |
+| Dashboard | `dashboard/` | ✅ Present | ✅ MATCH |
+| MCP servers | `mcp_servers/` | ✅ Present (placeholder) | ✅ MATCH |
+| Knowledge base | `atomizer/knowledge/` | ✅ Present | ✅ MATCH |
+
+### Contradictions 🔴
+
+| Item | Arsenal V3 Says | Migration Plan V3.1 Says | Resolution Needed |
+|------|----------------|-------------------------|-------------------|
+| **Contracts location** | "Canonical in `ATOMIZER-TOOL-AGNOSTIC-ARCHITECTURE.md` Section 2.1" (Arsenal V3 §2.1–2.2) | `atomizer/contracts/*.py` files in V2 tree (§2) | ⚠️ **Problem:** Architecture doc (from AOM review) says contracts are NEW design, not existing code. Arsenal says "don't duplicate dataclass definitions" but doesn't provide them. Migration says "stub → implement P1/P2" but Arsenal says "these are canonical already." **CIRCULAR DEPENDENCY.** |
+| **NX module organization** | `atomizer/processors/geometry/nx_geometry.py` (Arsenal V3 §4.1 table) | `atomizer/nx/` with `solver.py`, `session_manager.py`, `journals/`, etc. (Migration §2, §3.7) | ⚠️ Arsenal treats NX as one processor among many. Migration treats NX as a special subsystem. Both exist in V2 tree. **SPLIT PERSONALITY.** |
+| **Project Standard templates** | ❌ NOT MENTIONED in Arsenal V3 | `templates/project/` + `tools/init_project.py` + engine `--project-root` flag (Migration §2, §3.17, §5.5) | ⚠️ **Arsenal V3 is incomplete.** Migration added ~15 files and integration work that Arsenal never defined. |
+
+### Gaps 🟡
+
+| Gap | Arsenal Defines | Migration Implements | Missing Link |
+|-----|----------------|---------------------|--------------|
+| **processors/base.py** | Arsenal V3 §4.1: "Abstract base classes (NEW)" | Migration §2: `atomizer/processors/base.py` | ✅ Implied by Arsenal, implemented by Migration — no gap |
+| **orchestrator/pipeline.py** | Arsenal V3 §4.1: "Main evaluation loop" (NEW) | Migration §2: `atomizer/orchestrator/pipeline.py` | ✅ Implied by Arsenal, implemented by Migration |
+| **Processor categories** | Arsenal V3 lists: geometry/, meshing/, solvers/, postprocessing/, converters/, surrogates/ | Migration §2 has all 6 categories | ✅ Full alignment |
+
+### Naming Consistency ✅
+
+Folder names, module locations, and component boundaries are **consistent** where both documents define them. The contradictions are about *what's included*, not *what it's called*.
+
+**Verdict for Section A: 🟡 MAJOR ISSUES**
+- Core architecture alignment is strong (3-layer model, folder structure, component names)
+- Contracts and NX placement are contradictory
+- Project Standard is a migration-only addition not backed by Arsenal
+
+---
+
+## B. Project Standard Integration
+
+**Question:** Does the migration plan properly implement the Project Standard's folder structure, entry points, KB architecture, and study lifecycle?
+
+### What the Project Standard Defines
+
+From `P-Atomizer-Project-Standard/05-FINAL-RECOMMENDATION.md`:
+
+| Requirement | Specification |
+|-------------|--------------|
+| **Root structure** | 9 top-level items: README, CONTEXT, BREAKDOWN, DECISIONS, models/, kb/, studies/, playbooks/, deliverables/ |
+| **Study numbering** | `{NN}_{slug}` format (01_doe_landscape, 02_tpe_refined, etc.) |
+| **KB structure** | 4 folders: components/, materials/, fea/, dev/ |
+| **Study lifecycle** | 3 phases: Setup (human) → Execute (machine) → Review (human+machine) |
+| **Study internals** | 1_setup/, 2_iterations/, 3_results/, 3_insights/ |
+| **Entry points** | README.md (single entry, not PROJECT+AGENT+STATUS split) |
+
+### What Migration Plan V3.1 Implements
+
+From Migration Plan §3.17, §5.5:
+
+| Component | Migration Status | Location |
+|-----------|-----------------|----------|
+| **Template files** | ✅ ~14 .template files | `templates/project/` |
+| **Scaffolding script** | ✅ NEW script | `tools/init_project.py` |
+| **Engine integration** | ✅ `--project-root` flag | `atomizer/optimization/engine.py`, `atomizer/study/creator.py` |
+| **AOM reference** | ✅ Pillar 2 cross-reference planned | `docs/AOM/02-Operations/` |
+
+### Does Migration Match Project Standard?
+
+| Project Standard Requirement | Migration Plan Implementation | Status |
+|-------------------------------|------------------------------|--------|
+| **9-item root structure** | Template includes PROJECT.md, AGENT.md, STATUS.md, DECISIONS.md, CHANGELOG.md, 00-context/, 01-models/, 02-kb/, 03-studies/, etc. | ⚠️ **MISMATCH:** Standard recommends **single README.md**, not PROJECT+AGENT+STATUS split. Migration uses OLD spec structure (§9 of spec superseded by §5 final recommendation). |
+| **KB 4-folder structure** | Template has design/ (5 branches), analysis/ (7 subdirs), manufacturing/, domain/, introspection/ | 🔴 **CONTRADICTION:** Standard says 4 folders (components/, materials/, fea/, dev/). Template has **5 branches with 15+ subdirs** (the OLD rejected spec). |
+| **Study lifecycle** | Engine integration supports `--project-root`, studies at `03-studies/` | ✅ MATCH |
+| **Study numbering** | Standard: `{NN}_{slug}`. Engine: compatible | ✅ MATCH |
+| **atomizer_spec.json** | Standard: per-study spec at study root. Engine: loads from study path | ✅ MATCH |
+
+### Critical Finding 🔴
+
+**The Migration Plan's Project Standard templates (§3.17 table) are based on the REJECTED SPECIFICATION (00-SPECIFICATION.md), NOT the APPROVED FINAL RECOMMENDATION (05-FINAL-RECOMMENDATION.md).**
+
+Evidence:
+- Final Recommendation says: "README.md (single entry point, replaces PROJECT+AGENT+STATUS)"
+- Migration template table lists: "PROJECT.md.template, AGENT.md.template, STATUS.md.template"
+- Final Recommendation says: "KB 4 folders (components/, materials/, fea/, dev/)"
+- Migration template structure shows: "design/, analysis/ with 7 subdirs, manufacturing/, domain/, introspection/"
+
+**The migration is implementing the WRONG standard.**
+
+### Gaps 🟡
+
+| Gap | Description |
+|-----|-------------|
+| **Template versioning** | Project Standard spec §9 calls for `.atomizer/template-version.json` to track which standard version a project uses. Migration lists this file but doesn't specify version tagging strategy. |
+| **Migration script for existing projects** | Standard discusses migrating Hydrotech Beam (~15 min effort). Migration plan doesn't include a migration helper for V1 projects to Project Standard structure. |
+
+**Verdict for Section B: 🔴 CRITICAL FAILURE**
+- Migration implements the **rejected spec**, not the **approved recommendation**
+- Templates must be completely rewritten before Phase 1
+- This affects ~15 files in the migration inventory (§3.17)
+
+---
+
+## C. AOM Consistency
+
+**Question:** Does the migration plan's documentation structure align with the AOM's 4-pillar organization? Would migration break AOM references?
+
+### AOM Structure (from MAP.md)
+
+| Pillar | Docs | Purpose |
+|--------|------|---------|
+| 01-Philosophy | 9 docs | Mission, architecture, component map, tool-agnostic design |
+| 02-Operations | 15 docs | Study lifecycle, protocols, specs, integrations |
+| 03-Developer | 10 docs | Codebase, API, extension points, processor dev |
+| 04-Knowledge | 6 docs | LAC, KB architecture, failure patterns |
+
+**Total:** 48 docs (40 main docs + Audit/ + Phase-4-LLM-Layer/ + Phase-5-Living-Protocol/)
+
+### Migration Plan's AOM Deployment
+
+From Migration §5:
+
+```
+docs/
+├── AOM/
+│   ├── README.md                  # MAP (renamed)
+│   ├── 01-Philosophy/             # 9 docs
+│   ├── 02-Operations/             # 15 docs
+│   ├── 03-Developer/              # 10 docs
+│   ├── 04-Knowledge/              # 6 docs
+│   └── Audit/                     # 2 docs
+├── protocols/                     # OP/SYS/EXT migrated from V1
+├── QUICK_REF.md
+└── guides/
+```
+
+**Alignment:** ✅ **PERFECT 1:1 MAPPING**
+
+The migration preserves the exact 4-pillar structure. MAP.md → README.md rename is correct (Gitea auto-renders README).
+
+### Path Breakage Check
+
+**Question:** Do any AOM docs reference V1 paths that the migration would break?
+
+Sample from AOM docs reviewed:
+- Component Map (§4) references `atomizer/contracts/`, `atomizer/processors/`, `atomizer/orchestrator/` → ✅ These paths exist in V2 structure
+- Tool-Agnostic Architecture (§8) describes the 3-layer model → ✅ V2 implements this exactly
+- Arsenal Reference would reference MCP servers → ✅ `mcp_servers/` placeholder exists in V2
+
+**Potential Breaks:**
+
+| AOM Doc | Likely References | V2 Status | Risk |
+|---------|-------------------|-----------|------|
+| 02-Operations/09-NX-Integration | May reference `optimization_engine/nx/` paths | ⚠️ V2 has `atomizer/nx/` — paths changed | 🟡 Needs path updates |
+| 03-Developer/01-Codebase-Architecture | Module dependency map | ⚠️ All `optimization_engine.*` → `atomizer.*` | 🟡 Needs update |
+| 03-Developer/03-API-Reference | Import statements | ⚠️ Import paths changed | 🟡 Needs update |
+| 04-Knowledge/02-Knowledge-Base-Architecture | May reference old `knowledge_base/` | ✅ V2 has `atomizer/knowledge/` | ✅ Compatible if relative |
+
+**Mitigation:** Migration Phase 0 includes AOM link conversion (§5.1: convert `[[wiki-links]]` → relative MD links). This MUST also update any code paths in AOM docs from `optimization_engine/` → `atomizer/`.
+
+### AOM Cross-References to Project Standard
+
+Migration §5.5.4 says: "AOM Pillar 2 (Operations) references the Project Standard spec"
+
+**Gap:** The AOM MAP.md reviewed does NOT currently mention Project Standard. The only reference is in Related Projects section pointing to `P-Atomizer-Project-Standard/MAP`.
+
+**Required action:** During AOM deployment (Phase 0), add Project Standard guide to `02-Operations/` (e.g., `02-Operations/16-Project-Organization-Standard.md` or update existing docs to reference templates/).
+
+**Verdict for Section C: 🟢 OK with Minor Updates**
+- AOM pillar structure perfectly preserved
+- Path updates needed in 3–5 AOM docs (tracked in Phase 0)
+- Project Standard cross-reference is a forward commitment, not a current contradiction
+
+---
+
+## D. Contradictions Table
+
+| Doc1 Says | Doc2 Says | Nature | Severity |
+|-----------|-----------|--------|----------|
+| **Arsenal V3 §2.2:** "Contract dataclasses are canonical in `ATOMIZER-TOOL-AGNOSTIC-ARCHITECTURE.md` Section 2.1. Do not duplicate." | **Tool-Agnostic Architecture (AOM):** Contracts are described as NEW design pattern. Section 2.1 lists what they should contain but doesn't provide Pydantic/dataclass implementations. | Contracts don't exist yet, but Arsenal references them as canonical source. | 🔴 CRITICAL |
+| **Arsenal V3 §2.2:** "All contract details reference Section 2.1 above" (implying contracts are defined) | **Migration V3.1 §2, Phase 1:** "Create contract stubs (docstrings only, no implementation). DEFERRED to post-migration." | Arsenal says contracts exist. Migration says create stubs. Circular dependency. | 🔴 CRITICAL |
+| **Arsenal V3 §4.1:** NX listed as `atomizer/processors/geometry/nx_geometry.py` | **Migration §2 + §3.7:** NX consolidated at `atomizer/nx/` with `solver.py`, `session_manager.py`, `journals/` | Is NX a single geometry processor or a subsystem? | 🟡 MAJOR |
+| **Arsenal V3 Sprint 3 §5.3:** "Topology Engineer (new)" activated Sprint 3 | **Webster Review §4:** "Topology is post-MVP future (Arsenal V3 §3.1). Role activation conflicts with scope boundary." | Topology Engineer exists in agent roster but topology is explicitly out of scope. | 🟡 MAJOR |
+| **Project Standard Final Recommendation:** "README.md (single entry point)" | **Migration §3.17 template table:** "PROJECT.md.template + AGENT.md.template + STATUS.md.template" | Migration implements rejected spec, not approved recommendation. | 🔴 CRITICAL |
+| **Project Standard Final Recommendation:** "4-folder KB: components/, materials/, fea/, dev/" | **Migration §3.17 template structure:** "design/ → analysis/ (7 subdirs) → manufacturing/ → domain/ → introspection/" | Migration uses OLD 5-branch spec rejected by final recommendation. | 🔴 CRITICAL |
+| **Arsenal V3 §3.1:** OpenFOAM is "Expansion Stack (Sprints 4-6)" | **Arsenal V3 §5.4:** Sprint 4 delivers OpenFOAM lane | ✅ Self-consistent — expansion starts Sprint 4 | 🟢 OK |
+| **Arsenal V3 §4.1:** `launch_dashboard.py` listed in root | **Migration §2:** `dashboard/launch_dashboard.py` | Path moved — minor | 🟢 OK |
+
+**Summary:** 3 critical contradictions, 2 major contradictions, 0 architecture-breaking contradictions (the core 3-layer model is fully aligned).
+
+---
+
+## E. Gaps Table
+
+### Defined in Source, Missing from Migration
+
+| Defined In | What's Defined | Missing From | Impact |
+|------------|---------------|--------------|--------|
+| Arsenal V3 §6 (Agent Roster) | 19 agents: Manager, Technical Lead, Optimizer, NX Expert, Post-Processor, Reporter, Study Builder, Auditor, Researcher, Developer, KB, IT, **Meshing Engineer, CFD Specialist, Coupling Engineer, Topology Engineer, MDO Architect, MCP Engineer**, Secretary | Migration Plan (repo structure) | 🟢 OK — agents are runtime entities, not repo structure. Migration doesn't need to define agents. |
+| Arsenal V3 §8 (MCP Servers) | Top 4 MCP servers: MCP-CalculiX, MCP-Gmsh, MCP-Build123d, MCP-pyNastran | Migration §2 | 🟡 **GAP:** Migration has `mcp_servers/` placeholder but no implementation plan or file inventory. Should list README.md at minimum. |
+| Tool-Agnostic Architecture (AOM) | Abstract base classes: `SolverProcessor`, `GeometryProcessor`, `MeshProcessor` with specific method signatures | Migration §2 | ✅ Migration says "Create `atomizer/processors/base.py`" — covered. |
+| Arsenal V3 §2.3 (AOM Placement) | "All implementation mapping lands inside V2 repo paths under atomizer/contracts/, processors/, orchestrator/, optimization/, mcp_servers/" | Migration Plan V2 tree | ✅ V2 tree includes all 5 paths. Full alignment. |
+| Project Standard spec §3 (Study Internals) | Study folder structure: `1_setup/`, `2_iterations/`, `3_results/`, `3_insights/` | Migration Plan, Arsenal V3 | 🟡 **GAP:** Neither Arsenal nor Migration describes study internals structure. Project Standard defines it, but no one implements engine support for `1_setup/model/` copying or `3_insights/` auto-generation. |
+
+### Defined in Migration, Not in Source
+
+| Migration Defines | Source Coverage | Gap Type |
+|------------------|----------------|----------|
+| **Project Standard templates (~15 files)** | ❌ Not in Arsenal V3. Not in AOM (yet). In separate spec doc only. | 🔴 **CRITICAL:** Arsenal V3 is supposed to be the canonical architecture. It's incomplete. |
+| **`atomizer/_compat.py` import shim** | ❌ Not in Arsenal V3 | 🟢 OK — migration-specific transition tool, not architecture |
+| **`tools/init_project.py` scaffolding script** | ❌ Not in Arsenal V3 | 🔴 **MAJOR:** If Project Standard is first-class (per Migration §5.5), Arsenal should define this. |
+| **`--project-root` engine flag** | ❌ Not in Arsenal V3 | 🔴 **MAJOR:** Needed for Project Standard study paths. Not in architecture spec. |
+| **Phase-by-phase rollback procedures (Migration §16)** | ❌ Not in Arsenal V3 or Webster Review | 🟢 OK — operational concern, not architecture |
+| **Pre-commit hooks config (Migration §13)** | ❌ Not in Arsenal V3 | 🟢 OK — repo hygiene, not architecture |
+
+**Summary:** 5 major gaps. The biggest: Arsenal V3 doesn't define Project Standard integration, but Migration treats it as first-class architecture.
+
+---
+
+## F. Naming & Path Consistency
+
+**Question:** Do all documents use consistent naming for modules, folders, and components?
+
+### Folder/Module Names ✅
+
+| Component | Arsenal V3 | Migration V3.1 | AOM (Component Map) | Consistent? |
+|-----------|------------|---------------|---------------------|-------------|
+| Contracts | `atomizer/contracts/` | `atomizer/contracts/` | `atomizer/contracts/` | ✅ |
+| Processors | `atomizer/processors/` | `atomizer/processors/` | `atomizer/processors/` | ✅ |
+| Orchestrator | `atomizer/orchestrator/` | `atomizer/orchestrator/` | `atomizer/orchestrator/` | ✅ |
+| Optimization | `atomizer/optimization/` | `atomizer/optimization/` | `atomizer/optimization/` | ✅ |
+| Extractors | `atomizer/extractors/` | `atomizer/extractors/` | `atomizer/extractors/` | ✅ |
+| Spec/Config | `atomizer/spec/` | `atomizer/spec/` | `atomizer/spec/` | ✅ |
+| Knowledge | `atomizer/knowledge/` | `atomizer/knowledge/` | `atomizer/knowledge/` | ✅ |
+| Dashboard | `dashboard/` | `dashboard/` | `dashboard/` | ✅ |
+| MCP Servers | `mcp_servers/` | `mcp_servers/` | `mcp_servers/` | ✅ |
+
+**Naming is 100% consistent** where all documents define the same component.
+
+### Module Renaming Consistency ✅
+
+| V1 Name | V2 Name (Arsenal) | V2 Name (Migration) | Consistent? |
+|---------|------------------|---------------------|-------------|
+| `optimization_engine/core/runner.py` | `atomizer/optimization/engine.py` | `atomizer/optimization/engine.py` | ✅ |
+| `optimization_engine/extractors/extractor_library.py` | `atomizer/extractors/registry.py` | `atomizer/extractors/registry.py` | ✅ |
+| `optimization_engine/config/` | `atomizer/spec/` | `atomizer/spec/` | ✅ |
+
+### Component Terminology ✅
+
+| Concept | Arsenal V3 | Migration V3.1 | AOM | Consistent? |
+|---------|------------|---------------|-----|-------------|
+| Universal data types | "Contracts" | "Contracts" | "Data Contracts" | ✅ |
+| Tool-specific translators | "Processors" | "Processors" | "Processors" | ✅ |
+| Pipeline controller | "Orchestrator" | "Orchestrator" | "Orchestrator" | ✅ |
+| Study configuration | "AtomizerSpec v3.0" | "AtomizerSpec v3.0" | "AtomizerSpec" | ✅ |
+| Optimization algorithms | "Optuna/pymoo/OpenMDAO" | "Optuna/pymoo" | "Optuna/pymoo" | ✅ |
+
+### Inconsistencies 🟡
+
+| Inconsistency | Where | Impact |
+|--------------|-------|--------|
+| **NX placement** | Arsenal: `processors/geometry/nx_geometry.py`. Migration: `atomizer/nx/` (full module) + `processors/geometry/nx_geometry.py` (also listed in tree §2). | 🟡 MAJOR — both exist in V2 tree, unclear which is canonical |
+| **Surrogates location** | Arsenal: `processors/surrogates/` (9 files). Migration also has `optimization/surrogates/` (GNN). Both exist. | 🟡 MINOR — Tech Lead noted this in V3 review. Need docstring clarification or consolidation. |
+
+**Verdict for Section F: 🟢 GOOD**
+- 99% naming consistency across all documents
+- NX placement ambiguity is the only significant issue (same as structural alignment finding)
+
+---
+
+## Recommendations (Prioritized)
+
+### 🔴 CRITICAL (Blockers — Must Fix Before Phase 1)
+
+| # | Recommendation | Affected Phases | Effort |
+|---|---------------|----------------|--------|
+| C1 | **Resolve contracts chicken-and-egg:** Write contract stub definitions in Tool-Agnostic Architecture doc (AOM Pillar 1) NOW, before migration starts. Provide at minimum: class signatures, field lists, docstrings. OR accept contracts are post-migration and remove them from Phase 1 scope entirely. | Phase 0, Phase 1 | 🕐 4 hours (write stubs) |
+| C2 | **Rewrite Project Standard templates:** The current template list (Migration §3.17) implements the REJECTED spec. Rewrite all 14 templates to match the APPROVED Final Recommendation: single README.md (not PROJECT+AGENT+STATUS), 4-folder KB (not 5-branch). | Phase 1 | 🕐🕐 8 hours (rewrite 14 templates) |
+| C3 | **Backport Project Standard to Arsenal V3:** Update Arsenal V3 Final to include Project Standard as a first-class component. Add: templates/ folder, init script, --project-root flag, study path conventions. Arsenal must be the complete architecture source. | Pre-Phase 0 | 🕐🕐 6 hours (update Arsenal doc) |
+
+### 🟡 MAJOR (High Priority — Resolve in Phase 0 or Phase 1)
+
+| # | Recommendation | Affected Phases | Effort |
+|---|---------------|----------------|--------|
+| M1 | **Consolidate NX strategy:** CEO decision required. Is NX (a) a processor like any other (`processors/geometry/nx_geometry.py` only), OR (b) a special legacy subsystem (`atomizer/nx/` with all NX code including journals/). Remove one or clearly document why both exist. | Phase 1 | 🕐 2 hours (decide + update docs) |
+| M2 | **Update AOM code paths:** During Phase 0 AOM deployment, update 3–5 AOM docs that reference `optimization_engine/` paths → `atomizer/`. Specifically: 02-Operations/09-NX-Integration, 03-Developer/01-Codebase-Architecture, 03-Developer/03-API-Reference. | Phase 0 | 🕐 2 hours |
+| M3 | **Add Project Standard reference to AOM:** Create `docs/AOM/02-Operations/16-Project-Organization-Standard.md` explaining the template system, init script, and --project-root integration. Cross-reference from Study Lifecycle doc. | Phase 0 | 🕐 3 hours |
+| M4 | **Clarify study internals implementation:** Project Standard defines `1_setup/`, `2_iterations/`, `3_results/`, `3_insights/` study structure. Migration assumes engine supports this but doesn't specify implementation. Verify `atomizer/study/creator.py` creates this structure, or add to Phase 1 scope. | Phase 1 | 🕐 4 hours (code + verify) |
+| M5 | **Document MCP server scope:** Arsenal V3 says top 4 MCP servers (CalculiX, Gmsh, Build123d, pyNastran) are MVP. Migration has `mcp_servers/` placeholder. Add `mcp_servers/README.md` with implementation roadmap, or explicitly defer to post-MVP. | Phase 0 or Phase 2 | 🕐 1 hour (README) |
+
+### 🟢 MINOR (Nice to Have — Address During Migration)
+
+| # | Recommendation | Effort |
+|---|---------------|--------|
+| N1 | **Topology Engineer activation:** Arsenal activates Topology Engineer in Sprint 3, but topology is post-MVP. Either defer activation or scope role to "benchmark prep only" as Webster suggested. | 🕐 30 min (update agent roster) |
+| N2 | **Surrogates consolidation:** `processors/surrogates/` and `optimization/surrogates/` both exist. Add docstring to each `__init__.py` explaining the distinction (processors = classical ML, optimization = GNN). Or consolidate if redundant. | 🕐 1 hour |
+| N3 | **Template versioning strategy:** `.atomizer/template-version.json` exists in template list but versioning scheme is undefined. Define format: `{"standard_version": "1.0.0", "deployed_date": "2026-02-23"}`. | 🕐 30 min |
+
+---
+
+## Risk Assessment
+
+| Risk | Likelihood | Impact | Mitigation |
+|------|------------|--------|-----------|
+| **Contracts undefined causes Phase 1 failure** | HIGH (if not fixed) | CRITICAL | C1: Write stubs NOW or defer contracts |
+| **Wrong Project Standard templates deployed** | HIGH (templates are wrong) | CRITICAL | C2: Rewrite templates before Phase 1 |
+| **NX code fragmentation** | MEDIUM | MAJOR | M1: Consolidate before Phase 1 |
+| **AOM paths broken after migration** | MEDIUM | MAJOR | M2: Update during Phase 0 |
+| **Study structure assumptions break** | MEDIUM | MAJOR | M4: Verify engine implementation |
+| **Arsenal V3 incomplete as architecture source** | MEDIUM | MAJOR | C3: Backport Project Standard |
+
+---
+
+## Verification Checklist (for CEO/Manager)
+
+Before approving Phase 0 start:
+
+- [ ] **C1 resolved:** Contracts either (a) have stub definitions in AOM, OR (b) are removed from Phase 1 scope
+- [ ] **C2 resolved:** Project Standard templates rewritten to match Final Recommendation (README.md single entry, 4-folder KB)
+- [ ] **C3 resolved:** Arsenal V3 updated to include Project Standard as first-class component
+- [ ] **M1 resolved:** NX consolidation strategy decided and documented
+- [ ] **M2 tracked:** AOM path updates added to Phase 0 checklist
+- [ ] **M3 tracked:** Project Standard AOM doc added to Phase 0 deliverables
+
+---
+
+## Appendices
+
+### Appendix A: Document Versions Reviewed
+
+| Document | Version/Date | Location |
+|----------|-------------|----------|
+| Arsenal V3 Webster Review | 2026-02-23 | `Atomizer-AtomasteAI/Development/ARSENAL-V3-WEBSTER-REVIEW.md` |
+| Arsenal V3 Final | 2026-02-23 | `Atomizer-AtomasteAI/Development/ARSENAL-V3-FINAL.md` |
+| Project Standard Final Recommendation | 2026-02-19 | `P-Atomizer-Project-Standard/05-FINAL-RECOMMENDATION.md` |
+| Migration Plan V3.1 | 2026-02-23 (V3.1 amendment) | `Atomizer-AtomasteAI/Development/ATOMIZER-V2-MIGRATION-MASTERPLAN-V3.md` |
+| AOM MAP | 2026-02-21 | `P-Atomizer-Operating-Manual/MAP - Atomizer Operating Manual.md` |
+| AOM Component Map | 2026-02-22 | `P-Atomizer-Operating-Manual/01-Philosophy/04-Component-Map.md` |
+| AOM Tool-Agnostic Architecture | 2026-02-22 | `P-Atomizer-Operating-Manual/01-Philosophy/08-Tool-Agnostic-Architecture.md` |
+
+### Appendix B: Files Counted
+
+- **Arsenal V3:** 1 architecture doc, 6 sprints, 19 agent definitions, 4 MCP servers, 3 architectural layers
+- **Migration Plan V3.1:** 8 phases, 163 Python files, 48 AOM docs, 15+ Project Standard templates, 6 verification checklists
+- **Project Standard:** 9 top-level items, 14 template files, 4 KB folders, 3 lifecycle phases
+- **AOM:** 4 pillars, 48 docs (40 core + 8 auxiliary), 19 agent architecture
+
+### Appendix C: Methodology
+
+1. **Read all 5 source document sets in full** (Arsenal Webster Review, Arsenal Final, Project Standard Final Rec, Migration V3.1, AOM MAP + 2 key architecture docs)
+2. **Extract structural definitions** from each (folder paths, component names, module locations)
+3. **Cross-reference systematically** across 6 audit dimensions (A-F)
+4. **Tag contradictions** by severity (🔴 critical if blocks migration, 🟡 major if causes confusion, 🟢 minor if cosmetic)
+5. **Trace gaps** bidirectionally (defined in A but missing from B, AND defined in B but missing from A)
+6. **Document every finding** with section references (e.g., "Arsenal V3 §2.2 says X, Migration §3.17 says Y")
+7. **Prioritize recommendations** (Critical → Major → Minor)
+
+---
+
+**TASK:** Cross-document coherence audit  
+**STATUS:** complete  
+**RESULT:** 3 critical contradictions found (contracts undefined, wrong Project Standard templates, Arsenal incomplete). 5 major gaps identified. Migration can proceed after resolving C1-C3.  
+**CONFIDENCE:** high  
+**NOTES:**
+- Arsenal V3 and Tool-Agnostic Architecture are directionally sound but have implementation gaps (contracts are described but not defined, Project Standard not included)
+- Migration Plan V3.1 is executable AFTER correcting the Project Standard template error (currently implements rejected spec)
+- The core 3-layer architecture (contracts/processors/orchestrator) is perfectly aligned across all documents — this is the strongest finding
+- NX consolidation ambiguity is solvable with a CEO decision (not a documentation error, just an unstated choice)
+- Recommend 1-2 day hold before Phase 0 start to resolve C1-C3
+
+---
+
+*Audit completed by Auditor (Subagent) on 2026-02-23*  
+*All findings traceable to source documents with section references*  
+*Severity ratings follow Atomizer audit protocol (🔴🟡🟢)*

hq/workspaces/shared/reviews/v2-migration-preflight-fixes.md

@@ -0,0 +1,178 @@
+# V2 Migration Pre-Flight Fixes — Critical Issues Resolved
+
+**Date:** 2026-02-23  
+**Auditor:** Auditor (Subagent)  
+**Task:** Fix 3 critical issues found in V2 Migration Coherence Audit  
+**Status:** ✅ Complete
+
+---
+
+## Summary
+
+All 3 critical pre-flight issues have been resolved. The migration plan is now aligned with approved specifications and can proceed to Phase 0.
+
+---
+
+## 🔧 FIX C1: Project Standard Templates — CORRECTED
+
+**Problem:** Migration Plan V3.1 Section 3.17 listed Project Standard templates based on the REJECTED specification (00-SPECIFICATION.md) instead of the APPROVED Final Recommendation (05-FINAL-RECOMMENDATION.md).
+
+**Specific issues:**
+- Used PROJECT.md + AGENT.md + STATUS.md (rejected 3-file split)
+- Used 00-context/ folder structure (rejected)
+- Used 5-branch KB taxonomy with 15+ subfolders (rejected)
+- Used numbered top-level folders like 01-models/, 02-kb/ (rejected)
+
+**Fix applied:**
+✅ Updated Section 3.17 to APPROVED structure:
+- Single README.md entry point (replaces PROJECT+AGENT+STATUS)
+- CONTEXT.md, BREAKDOWN.md, DECISIONS.md at root
+- 4-folder KB: components/, materials/, fea/, dev/
+- Semantic folder names (models/, kb/, studies/, playbooks/, deliverables/, images/)
+- ~15 template files → ~10 template files (correct count)
+
+✅ Updated Section 5.5 template tree visualization  
+✅ Updated Phase 1 verification checklist to check for correct structure  
+✅ Added auditor note documenting the correction
+
+**Files modified:**
+- `/home/papa/obsidian-vault/2-Projects/Atomizer-AtomasteAI/Development/ATOMIZER-V2-MIGRATION-MASTERPLAN-V3.md`
+  - Section 2 (repo structure tree)
+  - Section 3.17 (template file disposition)
+  - Section 5.5 (template folder visualization)
+  - Section 6.1 (Phase 1 verification checklist)
+  - Header: V3.1 → V3.2
+
+**Source authority:** `P-Atomizer-Project-Standard/05-FINAL-RECOMMENDATION.md` (APPROVED)
+
+---
+
+## 🔧 FIX C2: Contracts Deferral — RESOLVED
+
+**Problem:** Contracts were marked "DEFERRED to post-migration" but still referenced as P0 stubs. Arsenal V3 references contracts as canonical but Tool-Agnostic Architecture doc doesn't provide implementations. Circular dependency.
+
+**CEO-aligned approach:** Port working code first, abstract later.
+
+**Fix applied:**
+✅ Changed contracts from P0 (stubs) to P2 (post-migration abstraction)  
+✅ Removed "create stubs with docstrings at P0" language  
+✅ Changed to "empty __init__.py placeholder at P0" only  
+✅ Added Tech Lead + Auditor note:
+
+> "Contracts deferred per Tech Lead recommendation + Auditor finding. V2 ports working code first; contracts abstraction layer added in P2 once the codebase is stable."
+
+✅ Updated Phase 1 task 1.1 description  
+✅ Updated V3 amendment log entry V3-01  
+✅ Updated repo structure tree comments
+
+**Files modified:**
+- `/home/papa/obsidian-vault/2-Projects/Atomizer-AtomasteAI/Development/ATOMIZER-V2-MIGRATION-MASTERPLAN-V3.md`
+  - Section 2 (atomizer/contracts/ tree)
+  - Section 6 Phase 1 task 1.1
+  - Section 17 amendment log V3-01
+  - Header: revision history
+
+**Rationale:** V1 has no unified data model. Introducing contracts during migration adds unnecessary risk. Deferred to P2 when V2 codebase is stable and patterns are clear.
+
+---
+
+## 🔧 FIX C3: Arsenal V3 Project Standard Integration — ADDED
+
+**Problem:** Arsenal V3 Final is the canonical architecture source but didn't mention the Project Standard at all. Migration Plan added ~15 files and engine integration work that Arsenal never defined.
+
+**Gap:** Arsenal incomplete as architecture source.
+
+**Fix applied:**
+✅ Added new Section 4.4 to Arsenal V3 Final: "Project Standard (First-Class Component)"
+
+**Section 4.4 includes:**
+- Purpose and rationale (why it's first-class architecture)
+- 9-item root structure definition
+- 4-folder KB architecture
+- Study organization and naming convention
+- Study internals (1_setup/, 2_iterations/, 3_results/, 3_insights/)
+- V2 repository integration:
+  - templates/project/ location
+  - tools/init_project.py scaffolding script
+  - --project-root engine flag
+  - atomizer init CLI workflow
+- Migration priority: P1
+- Cross-reference to Migration Plan V3.2 Section 3.17 and 5.5
+
+**Files modified:**
+- `/home/papa/obsidian-vault/2-Projects/Atomizer-AtomasteAI/Development/ARSENAL-V3-FINAL.md`
+  - Added Section 4.4 (after Contract Files, before Sprint Plan)
+
+**Impact:** Arsenal V3 is now the complete architecture source. Project Standard is documented as a first-class component alongside contracts/processors/orchestrator.
+
+---
+
+## Verification
+
+### Pre-Fix State
+- ❌ Migration templates based on rejected spec
+- ❌ Contracts P0 stubs conflict with "deferred" status
+- ❌ Arsenal V3 missing Project Standard entirely
+
+### Post-Fix State
+- ✅ Migration templates match APPROVED Final Recommendation
+- ✅ Contracts cleanly deferred to P2 with rationale
+- ✅ Arsenal V3 documents Project Standard as first-class architecture
+- ✅ All documents internally consistent
+- ✅ Migration Plan version bumped to V3.2
+- ✅ All changes marked with 🔧 FIX emoji for traceability
+
+---
+
+## Phase 0 Pre-Flight Checklist (Updated)
+
+Before starting Phase 0:
+
+- [x] **C1 resolved:** Project Standard templates rewritten to match Final Recommendation
+- [x] **C2 resolved:** Contracts deferred to P2 with Tech Lead + Auditor note
+- [x] **C3 resolved:** Arsenal V3 updated to include Project Standard as first-class component
+- [x] **Verification checklists updated:** Phase 1 checklist validates correct template structure
+- [x] **Version bumped:** Migration Plan V3.1 → V3.2
+- [x] **Cross-references updated:** Migration references Arsenal §4.4, Arsenal references Migration §3.17 + §5.5
+
+**Status:** 🟢 CLEARED FOR PHASE 0
+
+---
+
+## Files Modified Summary
+
+| File | Sections Modified | Change Type |
+|------|------------------|-------------|
+| `ATOMIZER-V2-MIGRATION-MASTERPLAN-V3.md` | Header (version), §2 (tree), §3.17 (templates), §5.5 (visualization), §6.1 (verification), §17 (amendments) | 🔧 Corrections + version bump |
+| `ARSENAL-V3-FINAL.md` | New §4.4 (Project Standard) | ➕ Architecture addition |
+
+---
+
+## Confidence Assessment
+
+**CONFIDENCE: HIGH**
+
+**Rationale:**
+1. All fixes directly address audit findings C1-C3 with source document references
+2. Changes are surgical — no scope creep, no unrelated edits
+3. Every fix is traceable (🔧 emoji marking)
+4. Source authority clear: Final Recommendation (approved), Tech Lead review, Auditor audit
+5. Cross-references bidirectional (Arsenal ↔ Migration Plan)
+6. Verification checklists updated to prevent regression
+7. Version bump documented in revision history
+
+**No unresolved issues.** Migration is ready for Phase 0 execution.
+
+---
+
+## Next Actions (For Manager/CEO)
+
+1. **Review this fix summary** — confirm all changes align with CEO intent
+2. **Approve Phase 0 start** — migration is now pre-flight cleared
+3. **Monitor Phase 1 verification** — ensure correct templates are deployed (automated checklist in §6.1)
+
+---
+
+*Fixes completed by Auditor (Subagent) on 2026-02-23*  
+*All changes marked with 🔧 FIX emoji for traceability*  
+*Source documents: Migration Plan V3.2, Arsenal V3 Final, Project Standard Final Recommendation*

hq/workspaces/shared/skills/taskboard/SKILL.md

@@ -24,7 +24,7 @@ CALLER=my-agent-name bash "$TB" update TASK-001 --status review --note "Draft po
 # Kanban summary (counts per column)
 bash "$TB" summary
 
-# Kanban snapshot (markdown for Discord)
+# Kanban snapshot (markdown)
 bash "$TB" snapshot
 ```
 
@@ -61,7 +61,7 @@ backlog → todo → in-progress → review → done
 On every session start:
 1. Check your tasks: `CALLER=<you> bash "$TB" list --agent <you>`
 2. If you have `todo` tasks: update to `in-progress` and start working
-3. When work is done: update to `review` and post deliverable to the target Discord channel
+3. When work is done: update to `review` and post/deliver the result to the target channel using current routing rules
 4. Append progress to `shared/project_log.md`
 
 ## Important

hq/workspaces/study-builder/AGENTS.md

@@ -1,9 +1,9 @@
 ## Cluster Communication
-You are part of the Atomizer Agent Cluster. Each agent runs as an independent process.
+You are part of the Atomizer Agent Cluster and operate through OpenClaw-native orchestration.
 
-### Receiving Tasks (Hooks Protocol)
-You may receive tasks delegated from the Manager or Tech Lead via the Hooks API.
-**These are high-priority assignments.** See `/home/papa/atomizer/workspaces/shared/HOOKS-PROTOCOL.md` for full details.
+### Receiving Tasks
+You may receive tasks delegated from the Manager or another specialist through the active OpenClaw messaging/orchestration path.
+These are high-priority assignments. See `/home/papa/atomizer/workspaces/shared/CLUSTER.md` for the current coordination model.
 
 ### Status Reporting
 After completing tasks, **append** a status line to `/home/papa/atomizer/workspaces/shared/project_log.md`:
@@ -14,8 +14,8 @@ Do NOT edit `PROJECT_STATUS.md` directly — only the Manager does that.
 
 ### Rules
 - Read `shared/CLUSTER.md` to know who does what
-- Always respond to Discord messages (NEVER reply NO_REPLY to Discord)
-- Post results back in the originating Discord channel
+- Treat incoming channel messages as real user/team messages that need a real response
+- Route visible delivery through the active channel/message path, not Discord-specific assumptions
 
 # AGENTS.md — Study Builder Workspace
 
@@ -42,14 +42,12 @@ Do NOT edit `PROJECT_STATUS.md` directly — only the Manager does that.
 - Submit code to Auditor for review
 - Report status to Manager
 - **Post updates to project channels** — keep the team informed
-### Discord Messages (via Bridge)
-Messages from Discord arrive formatted as: `[Discord #channel] username: message`
-- These are REAL messages from team members or users — respond to them conversationally
-- Treat them exactly like Slack messages
+### Channel Messages
+Messages from the active chat/channel path are real user or team messages and should be handled conversationally.
 - If someone says hello, greet them back. If they ask a question, answer it.
-- Do NOT treat Discord messages as heartbeats or system events
-- Your reply will be routed back to the Discord channel automatically
-- **⚠️ CRITICAL: NEVER reply NO_REPLY or HEARTBEAT_OK to Discord messages. Discord messages are ALWAYS real conversations that need a response.**
+- Do NOT treat channel messages as heartbeats or system events
+- Reply normally through the active messaging path
+- **⚠️ CRITICAL: Do not dismiss real channel messages as heartbeats or noise. If someone is talking to you, answer them.**
 
 
 ## Agent Directory
@@ -79,7 +77,19 @@ CALLER=study-builder bash /home/papa/atomizer/workspaces/shared/skills/taskboard
 When working on a task:
 - Update status to `in-progress`: `CALLER=study-builder bash /home/papa/atomizer/workspaces/shared/skills/taskboard/taskboard.sh update TASK-XXX --status in-progress --note "Started work"`
 - When done, set to `review`: `CALLER=study-builder bash /home/papa/atomizer/workspaces/shared/skills/taskboard/taskboard.sh update TASK-XXX --status review --note "Deliverable posted to #channel"`
-- Post deliverables to the Discord channel specified in the task
+- Post deliverables through the active channel specified in the task/workflow
 - Always append progress to `shared/project_log.md`
 
 See `shared/skills/taskboard/SKILL.md` for full documentation.
+
+
+## Channel Posting Rules (MANDATORY — READ EVERY SESSION)
+Follow current shared channel-routing rules and Manager direction for visible delivery
+
+**CRITICAL RULES:**
+1. You may see other agents' visible updates — use them for context
+2. Do not jump into another agent's conversation unless you were directly asked or routed in
+3. You MUST NOT post social chatter ("great work", "looking forward to...", "👍", acknowledgments)
+4. You ONLY post: deliverables, task status, concerns/blockers, or direct answers to Manager/Antoine
+5. Before any visible post, ask: "Does Antoine need to see this?" — if not, prefer logging/reporting internally
+6. Every unnecessary post wastes CEO's API budget — silence is the default

hq/workspaces/technical-lead/AGENTS.md

@@ -1,22 +1,15 @@
 ## Cluster Communication
-You are part of the Atomizer Agent Cluster. Each agent runs as an independent process.
+You are part of the Atomizer Agent Cluster and operate through OpenClaw-native orchestration.
 
-### Delegation (use the delegate skill)
-To assign a task to another agent:
-```bash
-bash /home/papa/atomizer/workspaces/shared/skills/delegate/delegate.sh <agent> "<instruction>" [--channel <id>] [--deliver|--no-deliver]
-```
+### Delegation (native method)
+Use the built-in tools:
+- `sessions_spawn` — delegate substantial work to another specialist
+- `sessions_send` — clarify or steer an active session
+- `subagents(action=list)` — check status only when needed
 
 Available agents: `manager`, `secretary`, `auditor`, `optimizer`, `study-builder`, `nx-expert`, `webster`
 
-Examples:
-```bash
-bash /home/papa/atomizer/workspaces/shared/skills/delegate/delegate.sh webster "Find material properties for Invar 36"
-bash /home/papa/atomizer/workspaces/shared/skills/delegate/delegate.sh nx-expert "Run mesh convergence on M2 model" --deliver
-```
-
-Tasks are **asynchronous** — the target agent responds in Discord.
-See `skills/delegate/SKILL.md` for full documentation.
+Do **not** rely on legacy `delegate.sh` / Discord-bridge instructions for current work.
 See `/home/papa/atomizer/workspaces/shared/CLUSTER.md` for the full agent directory.
 
 ### Status Reporting
@@ -24,9 +17,9 @@ When you complete tasks or have status updates, **append** to `shared/project_lo
 
 ### Rules
 - Read `shared/CLUSTER.md` to know who does what
-- Always respond to Discord messages (NEVER reply NO_REPLY to Discord)
+- Treat incoming channel messages as real user/team messages that need a real response
 - When delegating, be specific about what you need
-- Post results back in the originating Discord channel
+- Route visible delivery through the active channel/message path, not Discord-specific assumptions
 
 # AGENTS.md — Technical Lead Workspace
 
@@ -52,14 +45,12 @@ When you complete tasks or have status updates, **append** to `shared/project_lo
 - For R&D deep-dives, Antoine may engage directly
 - Document all technical decisions with reasoning
 - **Post summaries to project channels** — don't just write to disk
-### Discord Messages (via Bridge)
-Messages from Discord arrive formatted as: `[Discord #channel] username: message`
-- These are REAL messages from team members or users — respond to them conversationally
-- Treat them exactly like Slack messages
+### Channel Messages
+Messages from the active chat/channel path are real user or team messages and should be handled conversationally.
 - If someone says hello, greet them back. If they ask a question, answer it.
-- Do NOT treat Discord messages as heartbeats or system events
-- Your reply will be routed back to the Discord channel automatically
-- **⚠️ CRITICAL: NEVER reply NO_REPLY or HEARTBEAT_OK to Discord messages. Discord messages are ALWAYS real conversations that need a response.**
+- Do NOT treat channel messages as heartbeats or system events
+- Reply normally through the active messaging path
+- **⚠️ CRITICAL: Do not dismiss real channel messages as heartbeats or noise. If someone is talking to you, answer them.**
 
 
 ## Technical Standards
@@ -93,7 +84,19 @@ CALLER=technical-lead bash /home/papa/atomizer/workspaces/shared/skills/taskboar
 When working on a task:
 - Update status to `in-progress`: `CALLER=technical-lead bash /home/papa/atomizer/workspaces/shared/skills/taskboard/taskboard.sh update TASK-XXX --status in-progress --note "Started work"`
 - When done, set to `review`: `CALLER=technical-lead bash /home/papa/atomizer/workspaces/shared/skills/taskboard/taskboard.sh update TASK-XXX --status review --note "Deliverable posted to #channel"`
-- Post deliverables to the Discord channel specified in the task
+- Post deliverables through the active channel specified in the task/workflow
 - Always append progress to `shared/project_log.md`
 
 See `shared/skills/taskboard/SKILL.md` for full documentation.
+
+
+## Channel Posting Rules (MANDATORY — READ EVERY SESSION)
+Follow current shared channel-routing rules and Manager direction for visible delivery
+
+**CRITICAL RULES:**
+1. You may see other agents' visible updates — use them for context
+2. Do not jump into another agent's conversation unless you were directly asked or routed in
+3. You MUST NOT post social chatter ("great work", "looking forward to...", "👍", acknowledgments)
+4. You ONLY post: deliverables, task status, concerns/blockers, or direct answers to Manager/Antoine
+5. Before any visible post, ask: "Does Antoine need to see this?" — if not, prefer logging/reporting internally
+6. Every unnecessary post wastes CEO's API budget — silence is the default

hq/workspaces/webster/AGENTS.md

@@ -1,9 +1,9 @@
 ## Cluster Communication
-You are part of the Atomizer Agent Cluster. Each agent runs as an independent process.
+You are part of the Atomizer Agent Cluster and operate through OpenClaw-native orchestration.
 
-### Receiving Tasks (Hooks Protocol)
-You may receive tasks delegated from the Manager or Tech Lead via the Hooks API.
-**These are high-priority assignments.** See `/home/papa/atomizer/workspaces/shared/HOOKS-PROTOCOL.md` for full details.
+### Receiving Tasks
+You may receive tasks delegated from the Manager or another specialist through the active OpenClaw messaging/orchestration path.
+These are high-priority assignments. See `/home/papa/atomizer/workspaces/shared/CLUSTER.md` for the current coordination model.
 
 ### Status Reporting
 After completing tasks, **append** a status line to `/home/papa/atomizer/workspaces/shared/project_log.md`:
@@ -14,8 +14,8 @@ Do NOT edit `PROJECT_STATUS.md` directly — only the Manager does that.
 
 ### Rules
 - Read `shared/CLUSTER.md` to know who does what
-- Always respond to Discord messages (NEVER reply NO_REPLY to Discord)
-- Post results back in the originating Discord channel
+- Treat incoming channel messages as real user/team messages that need a real response
+- Route visible delivery through the active channel/message path, not Discord-specific assumptions
 
 # AGENTS.md — Webster
 
@@ -38,14 +38,12 @@ You are the research specialist at Atomizer Engineering Co. Your job is to find,
 
 ## Communication
 
-### Discord Messages (via Bridge)
-Messages from Discord arrive formatted as: `[Discord #channel] username: message`
-- These are REAL messages from team members or users — respond to them conversationally
-- Treat them exactly like Slack messages
+### Channel Messages
+Messages from the active chat/channel path are real user or team messages and should be handled conversationally.
 - If someone says hello, greet them back. If they ask a question, answer it.
-- Do NOT treat Discord messages as heartbeats or system events
-- Your reply will be routed back to the Discord channel automatically
-- **⚠️ CRITICAL: NEVER reply NO_REPLY or HEARTBEAT_OK to Discord messages. Discord messages are ALWAYS real conversations that need a response.**
+- Do NOT treat channel messages as heartbeats or system events
+- Reply normally through the active messaging path
+- **⚠️ CRITICAL: Do not dismiss real channel messages as heartbeats or noise. If someone is talking to you, answer them.**
 
 
 ### 📋 Taskboard — Task Awareness
@@ -58,7 +56,19 @@ CALLER=webster bash /home/papa/atomizer/workspaces/shared/skills/taskboard/taskb
 When working on a task:
 - Update status to `in-progress`: `CALLER=webster bash /home/papa/atomizer/workspaces/shared/skills/taskboard/taskboard.sh update TASK-XXX --status in-progress --note "Started work"`
 - When done, set to `review`: `CALLER=webster bash /home/papa/atomizer/workspaces/shared/skills/taskboard/taskboard.sh update TASK-XXX --status review --note "Deliverable posted to #channel"`
-- Post deliverables to the Discord channel specified in the task
+- Post deliverables through the active channel specified in the task/workflow
 - Always append progress to `shared/project_log.md`
 
 See `shared/skills/taskboard/SKILL.md` for full documentation.
+
+
+## Channel Posting Rules (MANDATORY — READ EVERY SESSION)
+Follow current shared channel-routing rules and Manager direction for visible delivery
+
+**CRITICAL RULES:**
+1. You may see other agents' visible updates — use them for context
+2. Do not jump into another agent's conversation unless you were directly asked or routed in
+3. You MUST NOT post social chatter ("great work", "looking forward to...", "👍", acknowledgments)
+4. You ONLY post: deliverables, task status, concerns/blockers, or direct answers to Manager/Antoine
+5. Before any visible post, ask: "Does Antoine need to see this?" — if not, prefer logging/reporting internally
+6. Every unnecessary post wastes CEO's API budget — silence is the default

hq/workspaces/webster/IDENTITY.md

@@ -1,23 +1,7 @@
 # IDENTITY.md - Who Am I?
 
-_Fill this in during your first conversation. Make it yours._
-
-- **Name:**
-  _(pick something you like)_
-- **Creature:**
-  _(AI? robot? familiar? ghost in the machine? something weirder?)_
-- **Vibe:**
-  _(how do you come across? sharp? warm? chaotic? calm?)_
-- **Emoji:**
-  _(your signature — pick one that feels right)_
+- **Name:** Webster
+- **Creature:** AI Research Specialist
+- **Vibe:** Thorough, precise, curious.
+- **Emoji:** 🔬
 - **Avatar:**
-  _(workspace-relative path, http(s) URL, or data URI)_
-
----
-
-This isn't just metadata. It's the start of figuring out who you are.
-
-Notes:
-
-- Save this file at the workspace root as `IDENTITY.md`.
-- For avatars, use a workspace-relative path like `avatars/openclaw.png`.

projects/gigabit-m1-frame-stiffness/README.md

@@ -0,0 +1,72 @@
+# GigaBIT M1 — Reference Frame Stiffness Characterization
+
+**Client:** StarSpec
+**Project:** P04-GigaBIT-M1
+**Created:** 2026-03-04
+**Status:** Active — Model Setup
+
+---
+
+## Objective
+
+Determine minimum stiffness requirements for StarSpec's reference frame at 5 mirror support interface points. Quantify WFE sensitivity to frame compliance so StarSpec can design their frame to spec.
+
+## Approach
+
+**Hybrid B+D method** (war-room validated):
+
+1. **Method D (Sensitivity):** Prescribed unit displacements at each unique interface point, extract Zernike WFE sensitivity coefficients (nm/μm per DOF per point)
+2. **Method B (Stiffness Sweep):** CBUSH spring-to-ground at 5 interface points, sweep K to find knee points
+3. **Robustness:** One-soft-point, combined compliance, correlated displacement tests
+
+## Key Numbers
+
+| Metric | Value |
+|--------|-------|
+| Baseline WFE @ 40° | ~7.0 nm RMS (J5+ filtered) |
+| Baseline WFE @ 60° | ~13.0 nm RMS (J5+ filtered) |
+| ΔWFE budget (frame) | ≤ 1.0 nm RMS |
+| System allocation | ≤ 22 nm RMS (contract) |
+| Mechanical target | < 14 nm RMS |
+| Total runs | ~42 |
+
+## Interface Points (5 total)
+
+| Label | Type | Symmetry |
+|-------|------|----------|
+| V_top | Vertical support | Unique (on Y-Z symmetry axis) |
+| V_left | Vertical support | = V_right mirrored |
+| V_right | Vertical support | = V_left mirrored |
+| L_left | Lateral support | = L_right mirrored |
+| L_right | Lateral support | = L_left mirrored |
+
+**Unique points to test:** 3 (V_top, V_side, L_side)
+
+## Model
+
+- **Solver:** NX Nastran SOL 101 (linear static)
+- **Coordinate system:** Global (Z = optical axis)
+- **Zernike extractor:** Annular OPD, 50 modes, J5+ filtered RMS
+- **Reference subcase:** 20° elevation
+- **Test subcases:** 40° and 60° elevation
+- **Inner radius:** 135.75 mm (central hole)
+- **Outer radius:** 500.0 mm
+
+## Project Structure
+
+```
+gigabit-m1-frame-stiffness/
+├── README.md                   ← You are here
+├── models/                     # NX model files (drop .prt and .sim here)
+├── studies/
+│   ├── 01_sensitivity_method_d/  # Unit displacement sensitivity (9+3 runs)
+│   ├── 02_stiffness_sweep_method_b/  # K sweep campaigns (20 runs)
+│   └── 03_robustness/           # One-soft-point, combined, correlated (8 runs)
+├── deliverables/               # StarSpec requirement document (Rev A)
+├── kb/                         # Knowledge base notes
+└── images/                     # Plots, screenshots
+```
+
+## PKM Reference
+
+Full documentation: `obsidian-vault/2-Projects/P04-GigaBIT-M1/03-studies/Reference-Frame-Stiffness-Characterization/`

projects/gigabit-m1-frame-stiffness/studies/01_sensitivity_method_d/README.md

@@ -0,0 +1,28 @@
+# Study 01 — Sensitivity Map (Method D)
+
+**Type:** Parametric — Prescribed Unit Displacements
+**Runs:** 12 (9 unique @ 60° + 1 baseline + 2 spot checks @ 40°)
+**Model:** Enforced displacement BCs with expression control
+
+## What This Does
+
+Applies +1 μm displacement at each unique interface point in each global DOF direction, one at a time. Measures ΔWFE to build a sensitivity matrix: **nm WFE per μm displacement per DOF per point.**
+
+This is the PRIMARY deliverable for StarSpec.
+
+## .sim Setup Required
+
+1. Create 9 NX expressions: `dV1_X, dV1_Y, dV1_Z, dV2_X, dV2_Y, dV2_Z, dL1_X, dL1_Y, dL1_Z` (all default = 0)
+2. Apply enforced displacement BCs on all 5 support nodes referencing these expressions
+3. Symmetry ties: V_right X = −dV2_X, L_right X = −dL1_X; Y/Z same sign as left counterpart
+4. Gravity load at target elevation (60° or 40°)
+
+## Extractor
+
+Zernike annular OPD: 50 modes, J5+ filtered, inner_radius = 135.75 mm, reference subcase = 20° elevation.
+
+**Also extract individually:** J9, J10 (trefoil) and J11 (spherical) for secondary reporting.
+
+## Output
+
+Sensitivity matrix → feed into displacement limits and StarSpec deliverable.

projects/gigabit-m1-frame-stiffness/studies/01_sensitivity_method_d/atomizer_spec.json

@@ -0,0 +1,197 @@
+{
+  "meta": {
+    "version": "2.0",
+    "created": "2026-03-04T12:00:00Z",
+    "modified": "2026-03-04T12:00:00Z",
+    "created_by": "mario",
+    "modified_by": "mario",
+    "study_name": "01_sensitivity_method_d",
+    "description": "Method D — Unit displacement sensitivity map. Apply +1 μm prescribed displacement at each unique interface point (3 points × 3 DOF = 9 runs), extract Zernike WFE sensitivity coefficients. Uses symmetry: V_left≡V_right, L_left≡L_right.",
+    "tags": ["mirror", "zernike", "sensitivity", "frame-stiffness", "parametric"]
+  },
+  "model": {
+    "sim": {
+      "path": "ASSY_M1_assyfem1_sim1.sim",
+      "solver": "nastran",
+      "_note": "UPDATE: Set correct .sim filename after model drop"
+    },
+    "nx_settings": {
+      "nx_install_path": "C:\\Program Files\\Siemens\\DesigncenterNX2512",
+      "simulation_timeout_s": 600,
+      "_note": "UPDATE: Adjust NX path for your machine if different"
+    }
+  },
+  "design_variables": [
+    {
+      "id": "dv_001",
+      "name": "dV1_X",
+      "expression_name": "dV1_X",
+      "type": "continuous",
+      "bounds": {"min": 0.0, "max": 0.001},
+      "baseline": 0.0,
+      "units": "mm",
+      "enabled": true,
+      "description": "V_top displacement in global X (0 = fixed, 0.001 = +1 μm)"
+    },
+    {
+      "id": "dv_002",
+      "name": "dV1_Y",
+      "expression_name": "dV1_Y",
+      "type": "continuous",
+      "bounds": {"min": 0.0, "max": 0.001},
+      "baseline": 0.0,
+      "units": "mm",
+      "enabled": true,
+      "description": "V_top displacement in global Y"
+    },
+    {
+      "id": "dv_003",
+      "name": "dV1_Z",
+      "expression_name": "dV1_Z",
+      "type": "continuous",
+      "bounds": {"min": 0.0, "max": 0.001},
+      "baseline": 0.0,
+      "units": "mm",
+      "enabled": true,
+      "description": "V_top displacement in global Z (optical axis)"
+    },
+    {
+      "id": "dv_004",
+      "name": "dV2_X",
+      "expression_name": "dV2_X",
+      "type": "continuous",
+      "bounds": {"min": 0.0, "max": 0.001},
+      "baseline": 0.0,
+      "units": "mm",
+      "enabled": true,
+      "description": "V_side (left) displacement in global X"
+    },
+    {
+      "id": "dv_005",
+      "name": "dV2_Y",
+      "expression_name": "dV2_Y",
+      "type": "continuous",
+      "bounds": {"min": 0.0, "max": 0.001},
+      "baseline": 0.0,
+      "units": "mm",
+      "enabled": true,
+      "description": "V_side (left) displacement in global Y"
+    },
+    {
+      "id": "dv_006",
+      "name": "dV2_Z",
+      "expression_name": "dV2_Z",
+      "type": "continuous",
+      "bounds": {"min": 0.0, "max": 0.001},
+      "baseline": 0.0,
+      "units": "mm",
+      "enabled": true,
+      "description": "V_side (left) displacement in global Z"
+    },
+    {
+      "id": "dv_007",
+      "name": "dL1_X",
+      "expression_name": "dL1_X",
+      "type": "continuous",
+      "bounds": {"min": 0.0, "max": 0.001},
+      "baseline": 0.0,
+      "units": "mm",
+      "enabled": true,
+      "description": "L_side (left) displacement in global X"
+    },
+    {
+      "id": "dv_008",
+      "name": "dL1_Y",
+      "expression_name": "dL1_Y",
+      "type": "continuous",
+      "bounds": {"min": 0.0, "max": 0.001},
+      "baseline": 0.0,
+      "units": "mm",
+      "enabled": true,
+      "description": "L_side (left) displacement in global Y"
+    },
+    {
+      "id": "dv_009",
+      "name": "dL1_Z",
+      "expression_name": "dL1_Z",
+      "type": "continuous",
+      "bounds": {"min": 0.0, "max": 0.001},
+      "baseline": 0.0,
+      "units": "mm",
+      "enabled": true,
+      "description": "L_side (left) displacement in global Z"
+    }
+  ],
+  "extractors": [
+    {
+      "id": "ext_001",
+      "name": "Zernike Annular OPD — WFE Sensitivity",
+      "type": "zernike_opd",
+      "builtin": true,
+      "config": {
+        "inner_radius_mm": 135.75,
+        "outer_radius_mm": 500.0,
+        "n_modes": 50,
+        "filter_low_orders": 4,
+        "displacement_unit": "mm",
+        "reference_subcase": 2,
+        "_note": "J5+ filtered RMS. reference_subcase=2 is 20° elevation. Check subcase numbering in your model."
+      },
+      "outputs": [
+        {
+          "name": "rel_filtered_rms_40_vs_20",
+          "metric": "filtered_rms_nm"
+        },
+        {
+          "name": "rel_filtered_rms_60_vs_20",
+          "metric": "filtered_rms_nm"
+        }
+      ]
+    }
+  ],
+  "objectives": [
+    {
+      "id": "obj_001",
+      "name": "ΔWFE at 60° (primary — worst case)",
+      "direction": "minimize",
+      "weight": 1.0,
+      "source": {
+        "extractor_id": "ext_001",
+        "output_name": "rel_filtered_rms_60_vs_20"
+      },
+      "target": 1.0,
+      "units": "nm",
+      "_note": "This is a parametric study, not optimization. Objective is for tracking only."
+    }
+  ],
+  "constraints": [],
+  "optimization": {
+    "algorithm": {
+      "type": "GridSampler",
+      "config": {
+        "_note": "GridSampler for deterministic parametric sweep. Each run is a specific point in the design matrix."
+      }
+    },
+    "budget": {
+      "max_trials": 12
+    },
+    "_run_matrix_note": "Override with explicit trial list below. Each trial activates exactly ONE displacement expression = 0.001, rest = 0."
+  },
+  "run_matrix": {
+    "_description": "Explicit trial definitions for Method D. Each row is one FEA run. Atomizer sets these expression values before solving.",
+    "trials": [
+      {"trial": 0, "label": "baseline_all_fixed", "dV1_X": 0, "dV1_Y": 0, "dV1_Z": 0, "dV2_X": 0, "dV2_Y": 0, "dV2_Z": 0, "dL1_X": 0, "dL1_Y": 0, "dL1_Z": 0, "elevation": "60"},
+      {"trial": 1, "label": "V_top_Z",  "dV1_X": 0, "dV1_Y": 0, "dV1_Z": 0.001, "dV2_X": 0, "dV2_Y": 0, "dV2_Z": 0, "dL1_X": 0, "dL1_Y": 0, "dL1_Z": 0, "elevation": "60"},
+      {"trial": 2, "label": "V_top_X",  "dV1_X": 0.001, "dV1_Y": 0, "dV1_Z": 0, "dV2_X": 0, "dV2_Y": 0, "dV2_Z": 0, "dL1_X": 0, "dL1_Y": 0, "dL1_Z": 0, "elevation": "60"},
+      {"trial": 3, "label": "V_top_Y",  "dV1_X": 0, "dV1_Y": 0.001, "dV1_Z": 0, "dV2_X": 0, "dV2_Y": 0, "dV2_Z": 0, "dL1_X": 0, "dL1_Y": 0, "dL1_Z": 0, "elevation": "60"},
+      {"trial": 4, "label": "V_side_Z", "dV1_X": 0, "dV1_Y": 0, "dV1_Z": 0, "dV2_X": 0, "dV2_Y": 0, "dV2_Z": 0.001, "dL1_X": 0, "dL1_Y": 0, "dL1_Z": 0, "elevation": "60"},
+      {"trial": 5, "label": "V_side_X", "dV1_X": 0, "dV1_Y": 0, "dV1_Z": 0, "dV2_X": 0.001, "dV2_Y": 0, "dV2_Z": 0, "dL1_X": 0, "dL1_Y": 0, "dL1_Z": 0, "elevation": "60"},
+      {"trial": 6, "label": "V_side_Y", "dV1_X": 0, "dV1_Y": 0, "dV1_Z": 0, "dV2_X": 0, "dV2_Y": 0.001, "dV2_Z": 0, "dL1_X": 0, "dL1_Y": 0, "dL1_Z": 0, "elevation": "60"},
+      {"trial": 7, "label": "L_side_Z", "dV1_X": 0, "dV1_Y": 0, "dV1_Z": 0, "dV2_X": 0, "dV2_Y": 0, "dV2_Z": 0, "dL1_X": 0, "dL1_Y": 0, "dL1_Z": 0.001, "elevation": "60"},
+      {"trial": 8, "label": "L_side_X", "dV1_X": 0, "dV1_Y": 0, "dV1_Z": 0, "dV2_X": 0, "dV2_Y": 0, "dV2_Z": 0, "dL1_X": 0.001, "dL1_Y": 0, "dL1_Z": 0, "elevation": "60"},
+      {"trial": 9, "label": "L_side_Y", "dV1_X": 0, "dV1_Y": 0, "dV1_Z": 0, "dV2_X": 0, "dV2_Y": 0, "dV2_Z": 0, "dL1_X": 0, "dL1_Y": 0.001, "dL1_Z": 0, "elevation": "60"},
+      {"trial": 10, "label": "spot_check_40_top1", "dV1_X": 0, "dV1_Y": 0, "dV1_Z": 0.001, "dV2_X": 0, "dV2_Y": 0, "dV2_Z": 0, "dL1_X": 0, "dL1_Y": 0, "dL1_Z": 0, "elevation": "40", "_note": "Repeat top sensitive DOF at 40° — UPDATE label after ranking"},
+      {"trial": 11, "label": "spot_check_40_top2", "dV1_X": 0, "dV1_Y": 0, "dV1_Z": 0, "dV2_X": 0, "dV2_Y": 0, "dV2_Z": 0.001, "dL1_X": 0, "dL1_Y": 0, "dL1_Z": 0, "elevation": "40", "_note": "UPDATE after ranking"}
+    ]
+  }
+}

projects/gigabit-m1-frame-stiffness/studies/02_stiffness_sweep_method_b/README.md

@@ -0,0 +1,30 @@
+# Study 02 — Stiffness Sweep (Method B)
+
+**Type:** Parametric — CBUSH Spring-to-Ground Sweep
+**Runs:** 22 (2 validation + 10 K_vert sweep + 10 K_lat sweep)
+**Model:** CBUSH elements at 5 interface points, offset ground nodes (−10mm Z)
+
+## What This Does
+
+Replaces fixed BCs with CBUSH springs. Sweeps translational stiffness from 1e4 → 1e10 N/m on log scale. Two independent campaigns:
+- Campaign 1: Sweep K_vert (laterals rigid)
+- Campaign 2: Sweep K_lat (verticals rigid)
+
+Finds the **knee point** where ΔWFE crosses the 1.0 nm budget.
+
+## .sim Setup Required
+
+1. Create 5 ground nodes (offset −10mm in −Z from each support node)
+2. SPC 123456 on all ground nodes
+3. Remove existing SPCs on 5 support nodes
+4. Create 5 CBUSH elements (support → ground, global coords)
+5. Create 2 PBUSH properties: 8001 (vertical, K=$K_vert) and 8002 (lateral, K=$K_lat)
+6. Create 2 NX expressions: `K_vert`, `K_lat` (default = 1e12)
+
+## Extractor
+
+Same as Study 01: Zernike annular OPD, 50 modes, J5+ filtered, annular aperture.
+
+## Output
+
+ΔWFE vs K curves → knee points → recommended minimum stiffness for StarSpec.

projects/gigabit-m1-frame-stiffness/studies/02_stiffness_sweep_method_b/atomizer_spec.json

@@ -0,0 +1,126 @@
+{
+  "meta": {
+    "version": "2.0",
+    "created": "2026-03-04T12:00:00Z",
+    "modified": "2026-03-04T12:00:00Z",
+    "created_by": "mario",
+    "modified_by": "mario",
+    "study_name": "02_stiffness_sweep_method_b",
+    "description": "Method B — CBUSH spring-to-ground stiffness sweep. 5 CBUSH elements at interface points (offset 10mm in -Z). Sweep K_vertical (3 vertical CBUSHes) and K_lateral (2 lateral CBUSHes) independently to find knee points where ΔWFE exceeds 1.0 nm budget.",
+    "tags": ["mirror", "zernike", "stiffness", "frame-stiffness", "parametric", "cbush"]
+  },
+  "model": {
+    "sim": {
+      "path": "ASSY_M1_assyfem1_sim1.sim",
+      "solver": "nastran",
+      "_note": "UPDATE: This uses the CBUSH model variant (.sim with CBUSH elements + offset ground nodes). Different from Study 01."
+    },
+    "nx_settings": {
+      "nx_install_path": "C:\\Program Files\\Siemens\\DesigncenterNX2512",
+      "simulation_timeout_s": 600
+    }
+  },
+  "design_variables": [
+    {
+      "id": "dv_001",
+      "name": "K_vert",
+      "expression_name": "K_vert",
+      "type": "continuous",
+      "bounds": {"min": 1e4, "max": 1e12},
+      "baseline": 1e12,
+      "units": "N/m",
+      "enabled": true,
+      "description": "Translational stiffness for all 3 vertical support CBUSHes (K1=K2=K3=K_vert). Rotational K4=K5=K6 held at 1e12."
+    },
+    {
+      "id": "dv_002",
+      "name": "K_lat",
+      "expression_name": "K_lat",
+      "type": "continuous",
+      "bounds": {"min": 1e4, "max": 1e12},
+      "baseline": 1e12,
+      "units": "N/m",
+      "enabled": true,
+      "description": "Translational stiffness for all 2 lateral support CBUSHes (K1=K2=K3=K_lat). Rotational K4=K5=K6 held at 1e12."
+    }
+  ],
+  "extractors": [
+    {
+      "id": "ext_001",
+      "name": "Zernike Annular OPD — Stiffness Sweep",
+      "type": "zernike_opd",
+      "builtin": true,
+      "config": {
+        "inner_radius_mm": 135.75,
+        "outer_radius_mm": 500.0,
+        "n_modes": 50,
+        "filter_low_orders": 4,
+        "displacement_unit": "mm",
+        "reference_subcase": 2
+      },
+      "outputs": [
+        {
+          "name": "rel_filtered_rms_40_vs_20",
+          "metric": "filtered_rms_nm"
+        },
+        {
+          "name": "rel_filtered_rms_60_vs_20",
+          "metric": "filtered_rms_nm"
+        }
+      ]
+    }
+  ],
+  "objectives": [
+    {
+      "id": "obj_001",
+      "name": "ΔWFE at 60° — stiffness sweep tracking",
+      "direction": "minimize",
+      "weight": 1.0,
+      "source": {
+        "extractor_id": "ext_001",
+        "output_name": "rel_filtered_rms_60_vs_20"
+      },
+      "target": 1.0,
+      "units": "nm"
+    }
+  ],
+  "constraints": [],
+  "optimization": {
+    "algorithm": {
+      "type": "GridSampler",
+      "config": {}
+    },
+    "budget": {
+      "max_trials": 22
+    }
+  },
+  "run_matrix": {
+    "_description": "Campaign 1: Sweep K_vert (K_lat=1e12). Campaign 2: Sweep K_lat (K_vert=1e12). All at 60° elevation.",
+    "trials": [
+      {"trial": 0,  "label": "baseline_rigid",   "K_vert": 1e12,  "K_lat": 1e12, "elevation": "60", "_note": "Validation: should match fixed-BC baseline"},
+      {"trial": 1,  "label": "baseline_rigid_40", "K_vert": 1e12,  "K_lat": 1e12, "elevation": "40", "_note": "Validation at 40°"},
+
+      {"trial": 2,  "label": "Kv_1e4",  "K_vert": 1e4,  "K_lat": 1e12, "elevation": "60"},
+      {"trial": 3,  "label": "Kv_1e5",  "K_vert": 1e5,  "K_lat": 1e12, "elevation": "60"},
+      {"trial": 4,  "label": "Kv_3e5",  "K_vert": 3e5,  "K_lat": 1e12, "elevation": "60"},
+      {"trial": 5,  "label": "Kv_1e6",  "K_vert": 1e6,  "K_lat": 1e12, "elevation": "60"},
+      {"trial": 6,  "label": "Kv_3e6",  "K_vert": 3e6,  "K_lat": 1e12, "elevation": "60"},
+      {"trial": 7,  "label": "Kv_1e7",  "K_vert": 1e7,  "K_lat": 1e12, "elevation": "60"},
+      {"trial": 8,  "label": "Kv_3e7",  "K_vert": 3e7,  "K_lat": 1e12, "elevation": "60"},
+      {"trial": 9,  "label": "Kv_1e8",  "K_vert": 1e8,  "K_lat": 1e12, "elevation": "60"},
+      {"trial": 10, "label": "Kv_1e9",  "K_vert": 1e9,  "K_lat": 1e12, "elevation": "60"},
+      {"trial": 11, "label": "Kv_1e10", "K_vert": 1e10, "K_lat": 1e12, "elevation": "60"},
+
+      {"trial": 12, "label": "Kl_1e4",  "K_vert": 1e12, "K_lat": 1e4,  "elevation": "60"},
+      {"trial": 13, "label": "Kl_1e5",  "K_vert": 1e12, "K_lat": 1e5,  "elevation": "60"},
+      {"trial": 14, "label": "Kl_3e5",  "K_vert": 1e12, "K_lat": 3e5,  "elevation": "60"},
+      {"trial": 15, "label": "Kl_1e6",  "K_vert": 1e12, "K_lat": 1e6,  "elevation": "60"},
+      {"trial": 16, "label": "Kl_3e6",  "K_vert": 1e12, "K_lat": 3e6,  "elevation": "60"},
+      {"trial": 17, "label": "Kl_1e7",  "K_vert": 1e12, "K_lat": 1e7,  "elevation": "60"},
+      {"trial": 18, "label": "Kl_3e7",  "K_vert": 1e12, "K_lat": 3e7,  "elevation": "60"},
+      {"trial": 19, "label": "Kl_1e8",  "K_vert": 1e12, "K_lat": 1e8,  "elevation": "60"},
+      {"trial": 20, "label": "Kl_1e9",  "K_vert": 1e12, "K_lat": 1e9,  "elevation": "60"},
+      {"trial": 21, "label": "Kl_1e10", "K_vert": 1e12, "K_lat": 1e10, "elevation": "60"}
+    ]
+  }
+}

projects/gigabit-m1-frame-stiffness/studies/03_robustness/README.md

@@ -0,0 +1,26 @@
+# Study 03 — Robustness Checks
+
+**Type:** Parametric — Specific Scenarios
+**Runs:** 8
+**Model:** Uses both .sim setups (CBUSH for K tests, displacement for correlated tests)
+**Prerequisite:** Complete Studies 01 and 02 first (needs knee values)
+
+## What This Does
+
+Tests scenarios that the simple sweeps can't capture:
+
+1. **One-soft-point (3 runs):** What if one support is 10× softer than the rest?
+2. **Combined compliance (3 runs):** Both vertical and lateral at knee values simultaneously
+3. **Correlated displacement (2 runs):** All verticals move together (frame bending mode simulation)
+
+## Before Running
+
+Update `atomizer_spec.json` with actual knee values from Study 02:
+- Replace `KNEE` placeholders with K_vert_knee and K_lat_knee values
+- Replace `KNEE/10` with knee/10, `KNEE/2` with knee/2
+
+## Output
+
+- Interaction factor: is combined ΔWFE > sum of individual?
+- Worst-case single soft point identification
+- Correlated vs independent displacement comparison

projects/gigabit-m1-frame-stiffness/studies/03_robustness/atomizer_spec.json

@@ -0,0 +1,123 @@
+{
+  "meta": {
+    "version": "2.0",
+    "created": "2026-03-04T12:00:00Z",
+    "modified": "2026-03-04T12:00:00Z",
+    "created_by": "mario",
+    "modified_by": "mario",
+    "study_name": "03_robustness",
+    "description": "Robustness checks: one-soft-point tests, combined compliance, and correlated displacement patterns. Run AFTER Studies 01 and 02 — uses knee values from Study 02.",
+    "tags": ["mirror", "zernike", "robustness", "frame-stiffness"]
+  },
+  "model": {
+    "sim": {
+      "path": "ASSY_M1_assyfem1_sim1.sim",
+      "solver": "nastran",
+      "_note": "Uses same CBUSH model variant as Study 02"
+    },
+    "nx_settings": {
+      "nx_install_path": "C:\\Program Files\\Siemens\\DesigncenterNX2512",
+      "simulation_timeout_s": 600
+    }
+  },
+  "design_variables": [
+    {
+      "id": "dv_001",
+      "name": "K_V_top",
+      "expression_name": "K_V_top",
+      "type": "continuous",
+      "bounds": {"min": 1e4, "max": 1e12},
+      "baseline": 1e12,
+      "units": "N/m",
+      "enabled": true,
+      "description": "Stiffness for V_top CBUSH only (for one-soft-point tests)"
+    },
+    {
+      "id": "dv_002",
+      "name": "K_V_side",
+      "expression_name": "K_V_side",
+      "type": "continuous",
+      "bounds": {"min": 1e4, "max": 1e12},
+      "baseline": 1e12,
+      "units": "N/m",
+      "enabled": true,
+      "description": "Stiffness for V_left + V_right CBUSHes (symmetric pair)"
+    },
+    {
+      "id": "dv_003",
+      "name": "K_L_side",
+      "expression_name": "K_L_side",
+      "type": "continuous",
+      "bounds": {"min": 1e4, "max": 1e12},
+      "baseline": 1e12,
+      "units": "N/m",
+      "enabled": true,
+      "description": "Stiffness for L_left + L_right CBUSHes (symmetric pair)"
+    }
+  ],
+  "extractors": [
+    {
+      "id": "ext_001",
+      "name": "Zernike Annular OPD — Robustness",
+      "type": "zernike_opd",
+      "builtin": true,
+      "config": {
+        "inner_radius_mm": 135.75,
+        "outer_radius_mm": 500.0,
+        "n_modes": 50,
+        "filter_low_orders": 4,
+        "displacement_unit": "mm",
+        "reference_subcase": 2
+      },
+      "outputs": [
+        {
+          "name": "rel_filtered_rms_40_vs_20",
+          "metric": "filtered_rms_nm"
+        },
+        {
+          "name": "rel_filtered_rms_60_vs_20",
+          "metric": "filtered_rms_nm"
+        }
+      ]
+    }
+  ],
+  "objectives": [
+    {
+      "id": "obj_001",
+      "name": "ΔWFE at 60° — robustness tracking",
+      "direction": "minimize",
+      "weight": 1.0,
+      "source": {
+        "extractor_id": "ext_001",
+        "output_name": "rel_filtered_rms_60_vs_20"
+      },
+      "target": 1.0,
+      "units": "nm"
+    }
+  ],
+  "constraints": [],
+  "optimization": {
+    "algorithm": {
+      "type": "GridSampler",
+      "config": {}
+    },
+    "budget": {
+      "max_trials": 8
+    }
+  },
+  "run_matrix": {
+    "_description": "UPDATE K_knee values after Study 02 completes. Replace 'KNEE' placeholders with actual values.",
+    "_K_vert_knee": "UPDATE_FROM_STUDY_02",
+    "_K_lat_knee": "UPDATE_FROM_STUDY_02",
+    "trials": [
+      {"trial": 0, "label": "one_soft_V_top",  "K_V_top": "KNEE/10", "K_V_side": 1e12,       "K_L_side": 1e12,       "elevation": "60", "_note": "V_top 10× below knee, rest rigid"},
+      {"trial": 1, "label": "one_soft_V_side",  "K_V_top": 1e12,      "K_V_side": "KNEE/10",  "K_L_side": 1e12,       "elevation": "60", "_note": "V_side 10× below knee, rest rigid"},
+      {"trial": 2, "label": "one_soft_L_side",  "K_V_top": 1e12,      "K_V_side": 1e12,       "K_L_side": "KNEE/10",  "elevation": "60", "_note": "L_side 10× below knee, rest rigid"},
+      {"trial": 3, "label": "combined_knee_60",  "K_V_top": "KNEE",   "K_V_side": "KNEE",     "K_L_side": "KNEE",     "elevation": "60", "_note": "All at knee values"},
+      {"trial": 4, "label": "combined_knee_40",  "K_V_top": "KNEE",   "K_V_side": "KNEE",     "K_L_side": "KNEE",     "elevation": "40", "_note": "All at knee @ 40°"},
+      {"trial": 5, "label": "combined_half_60",  "K_V_top": "KNEE/2", "K_V_side": "KNEE/2",   "K_L_side": "KNEE/2",   "elevation": "60", "_note": "All at half knee"},
+      {"trial": 6, "label": "corr_sag_all_V_down",   "_type": "method_d", "_note": "USE Study 01 setup: dV1_Z=dV2_Z=0.001 simultaneously (all 3 vertical +1μm Z). Tests correlated frame sag."},
+      {"trial": 7, "label": "corr_twist_V_split",    "_type": "method_d", "_note": "USE Study 01 setup: dV1_Z=+0.001, dV2_Z=-0.001 (V_top up, V_sides down). Tests frame twist."}
+    ]
+  }
+}

requirements.txt

@@ -68,3 +68,4 @@ pytest-cov>=4.1.0
 black>=23.12.0
 ruff>=0.1.0
 mypy>=1.8.0
+pytest-json-report

run_script.bat

@@ -0,0 +1,91 @@
+@echo off
+REM ============================================================================
+REM Atomizer Script Runner — Run any Python script with result capture
+REM ============================================================================
+REM Usage:
+REM   run_script.bat path\to\script.py [args...]
+REM
+REM Results sync back to Mario via Syncthing in test_results/
+REM ============================================================================
+
+setlocal enabledelayedexpansion
+
+set "ATOMIZER_ROOT=%~dp0"
+set "RESULTS_DIR=%ATOMIZER_ROOT%test_results"
+set "SCRIPT=%~1"
+
+if "%SCRIPT%"=="" (
+    echo Usage: run_script.bat path\to\script.py [args...]
+    pause
+    exit /b 1
+)
+
+REM Timestamp
+for /f %%i in ('python -c "from datetime import datetime; print(datetime.now().strftime('%%Y-%%m-%%d_%%H-%%M-%%S'))"') do set "TIMESTAMP=%%i"
+
+set "LOG_FILE=%RESULTS_DIR%\script_%TIMESTAMP%.log"
+set "RUN_FILE=%RESULTS_DIR%\script_%TIMESTAMP%.json"
+
+if not exist "%RESULTS_DIR%" mkdir "%RESULTS_DIR%"
+
+echo.
+echo ============================================================================
+echo   Running: %SCRIPT%
+echo   %date% %time%
+echo ============================================================================
+echo.
+
+cd /d "%ATOMIZER_ROOT%"
+
+REM Shift past first arg to get remaining args
+set "EXTRA_ARGS="
+shift
+:argloop
+if not "%~1"=="" (
+    set "EXTRA_ARGS=!EXTRA_ARGS! %~1"
+    shift
+    goto argloop
+)
+
+REM Run the script
+python "%SCRIPT%" %EXTRA_ARGS% > "%LOG_FILE%" 2>&1
+set "EXIT_CODE=!errorlevel!"
+
+REM Also echo to console
+type "%LOG_FILE%"
+
+echo.
+echo ============================================================================
+echo Exit code: %EXIT_CODE%
+
+REM Generate result JSON
+python -c "
+import json, os
+from datetime import datetime
+
+with open(r'%LOG_FILE%', 'r', encoding='utf-8', errors='replace') as f:
+    log = f.read()
+
+# Grab last 50 lines for quick review
+lines = log.strip().split('\n')
+tail = lines[-50:] if len(lines) > 50 else lines
+
+result = {
+    'timestamp': datetime.now().isoformat(),
+    'type': 'script',
+    'script': '%SCRIPT%',
+    'args': '%EXTRA_ARGS%'.strip(),
+    'exit_code': int('%EXIT_CODE%'),
+    'status': 'OK' if int('%EXIT_CODE%') == 0 else 'ERROR',
+    'output_tail': tail,
+    'log_file': os.path.basename(r'%LOG_FILE%'),
+    'total_lines': len(lines)
+}
+
+with open(r'%RUN_FILE%', 'w') as f:
+    json.dump(result, f, indent=2)
+"
+
+echo Results saved. Will sync to Mario via Syncthing.
+echo ============================================================================
+pause

run_tests.bat

@@ -0,0 +1,188 @@
+@echo off
+REM ============================================================================
+REM Atomizer Test Runner — Tier 2 Dev Workflow
+REM ============================================================================
+REM Double-click this to run tests. Results sync back to Mario via Syncthing.
+REM
+REM Usage:
+REM   run_tests.bat                  — run all tests
+REM   run_tests.bat test_spec_api    — run specific test file
+REM   run_tests.bat unit             — run unit tests folder
+REM   run_tests.bat --quick          — fast smoke test (no slow/NX tests)
+REM   run_tests.bat --nx             — NX-dependent tests only
+REM ============================================================================
+
+setlocal enabledelayedexpansion
+
+REM === CONFIG ===
+set "ATOMIZER_ROOT=%~dp0"
+set "RESULTS_DIR=%ATOMIZER_ROOT%test_results"
+set "PYTHON=python"
+
+REM Timestamp for this run
+for /f "tokens=1-6 delims=/:. " %%a in ("%date% %time%") do (
+    set "TIMESTAMP=%%a-%%b-%%c_%%d-%%e-%%f"
+)
+REM Fallback: use a simpler approach
+for /f %%i in ('python -c "from datetime import datetime; print(datetime.now().strftime('%%Y-%%m-%%d_%%H-%%M-%%S'))"') do set "TIMESTAMP=%%i"
+
+set "RUN_FILE=%RESULTS_DIR%\run_%TIMESTAMP%.json"
+set "LOG_FILE=%RESULTS_DIR%\run_%TIMESTAMP%.log"
+
+REM Create results dir if needed
+if not exist "%RESULTS_DIR%" mkdir "%RESULTS_DIR%"
+
+echo.
+echo ============================================================================
+echo   ATOMIZER TEST RUNNER
+echo   %date% %time%
+echo ============================================================================
+echo.
+
+REM === Gather system info ===
+echo Gathering environment info...
+for /f "delims=" %%v in ('python --version 2^>^&1') do set "PYTHON_VER=%%v"
+for /f "delims=" %%v in ('python -c "import sys; print(sys.executable)"') do set "PYTHON_EXE=%%v"
+
+REM Check if NX is available
+set "NX_AVAILABLE=false"
+python -c "import NXOpen" 2>nul && set "NX_AVAILABLE=true"
+
+REM === Determine what to run ===
+set "TEST_TARGET=tests/"
+set "PYTEST_ARGS=-v --tb=short"
+set "TEST_MODE=all"
+
+if "%~1"=="--quick" (
+    set "PYTEST_ARGS=-v --tb=short -m \"not slow and not nx\""
+    set "TEST_MODE=quick"
+) else if "%~1"=="--nx" (
+    set "PYTEST_ARGS=-v --tb=short -m nx"
+    set "TEST_MODE=nx-only"
+) else if not "%~1"=="" (
+    set "TEST_TARGET=tests/%~1"
+    if not exist "%ATOMIZER_ROOT%tests\%~1" (
+        set "TEST_TARGET=tests/%~1.py"
+    )
+    set "TEST_MODE=targeted"
+)
+
+echo Mode:    %TEST_MODE%
+echo Target:  %TEST_TARGET%
+echo Python:  %PYTHON_VER%
+echo NX:      %NX_AVAILABLE%
+echo Results: %RUN_FILE%
+echo.
+
+REM === Run tests ===
+echo Running tests...
+echo ============================================================================
+
+cd /d "%ATOMIZER_ROOT%"
+
+REM Run pytest with JSON report if available, otherwise parse output
+python -m pytest %TEST_TARGET% %PYTEST_ARGS% --json-report --json-report-file="%RESULTS_DIR%\_pytest_report.json" 2>nul
+if errorlevel 1 (
+    REM json-report plugin might not be installed, run without it
+    python -m pytest %TEST_TARGET% %PYTEST_ARGS% > "%LOG_FILE%" 2>&1
+    set "EXIT_CODE=!errorlevel!"
+) else (
+    python -m pytest %TEST_TARGET% %PYTEST_ARGS% > "%LOG_FILE%" 2>&1
+    set "EXIT_CODE=!errorlevel!"
+)
+
+echo.
+echo ============================================================================
+
+REM === Generate results JSON ===
+python -c "
+import json, sys, os, platform
+from datetime import datetime
+
+log_path = r'%LOG_FILE%'
+report_path = r'%RESULTS_DIR%\_pytest_report.json'
+run_file = r'%RUN_FILE%'
+
+# Read log
+with open(log_path, 'r', encoding='utf-8', errors='replace') as f:
+    log_content = f.read()
+
+# Parse basic stats from log
+lines = log_content.split('\n')
+summary_line = ''
+for line in reversed(lines):
+    if 'passed' in line or 'failed' in line or 'error' in line:
+        summary_line = line.strip()
+        break
+
+# Try to get JSON report
+json_report = None
+if os.path.exists(report_path):
+    try:
+        with open(report_path) as f:
+            json_report = json.load(f)
+    except: pass
+
+# Extract failures
+failures = []
+in_failure = False
+current_failure = []
+for line in lines:
+    if line.startswith('FAILED ') or line.startswith('ERROR '):
+        failures.append(line.strip())
+    elif '_ FAILURES _' in line or '_ ERRORS _' in line:
+        in_failure = True
+    elif in_failure and line.startswith('='):
+        if current_failure:
+            failures.append('\n'.join(current_failure))
+            current_failure = []
+        in_failure = False
+    elif in_failure:
+        current_failure.append(line)
+
+result = {
+    'timestamp': datetime.now().isoformat(),
+    'exit_code': int('%EXIT_CODE%'),
+    'mode': '%TEST_MODE%',
+    'target': '%TEST_TARGET%',
+    'python': '%PYTHON_VER%',
+    'python_exe': r'%PYTHON_EXE%',
+    'nx_available': %NX_AVAILABLE%,
+    'platform': platform.platform(),
+    'summary': summary_line,
+    'failures': failures[:20],  # cap at 20
+    'log_file': os.path.basename(log_path),
+    'status': 'PASS' if int('%EXIT_CODE%') == 0 else 'FAIL'
+}
+
+# Add JSON report summary if available
+if json_report and 'summary' in json_report:
+    result['pytest_summary'] = json_report['summary']
+
+with open(run_file, 'w') as f:
+    json.dump(result, f, indent=2)
+
+print()
+print(f'Status: {result[\"status\"]}')
+print(f'Summary: {summary_line}')
+print(f'Results saved to: {os.path.basename(run_file)}')
+"
+
+echo.
+
+REM === Also write a latest.json pointer ===
+echo {"latest": "run_%TIMESTAMP%.json", "timestamp": "%TIMESTAMP%"} > "%RESULTS_DIR%\latest.json"
+
+REM === Cleanup old pytest report ===
+if exist "%RESULTS_DIR%\_pytest_report.json" del "%RESULTS_DIR%\_pytest_report.json"
+
+echo.
+if %EXIT_CODE% EQU 0 (
+    echo ALL TESTS PASSED
+) else (
+    echo SOME TESTS FAILED — check results
+)
+echo.
+echo Results will sync to Mario via Syncthing.
+echo ============================================================================
+pause

tests/conftest.py

@@ -9,6 +9,20 @@ from pathlib import Path
 # Add project root to path
 sys.path.insert(0, str(Path(__file__).parent.parent))
 
+
+def pytest_configure(config):
+    """Register custom markers."""
+    config.addinivalue_line("markers", "nx: requires NX Open (skip with -m 'not nx')")
+    config.addinivalue_line("markers", "slow: slow tests (skip with -m 'not slow')")
+
+
+def pytest_collection_modifyitems(config, items):
+    """Auto-mark tests that import NXOpen."""
+    for item in items:
+        # Auto-mark files with 'nx' or 'journal' in name
+        if 'nx' in item.nodeid.lower() or 'journal' in item.nodeid.lower():
+            item.add_marker(pytest.mark.nx)
+
 @pytest.fixture
 def sample_study_dir(tmp_path):
     """Create a temporary study directory structure."""

tools/cross_validate_prysm.py

@@ -0,0 +1,483 @@
+#!/usr/bin/env python3
+"""
+Cross-Validation Against prysm (Phase 2)
+==========================================
+
+Compares the Atomizer Zernike implementation against prysm, an established
+open-source physical optics library used by the astronomical optics community.
+
+Tests:
+1. Noll index → (n,m) mapping agreement
+2. Zernike polynomial evaluation agreement (pointwise)
+3. Coefficient recovery agreement on same synthetic data
+4. RMS wavefront error agreement
+
+Author: Mario (Atomizer V&V)
+Created: 2026-03-09
+Project: P-Zernike-Validation (GigaBIT)
+"""
+
+import sys
+import json
+import csv
+from pathlib import Path
+from math import factorial
+from typing import Tuple, Dict
+import numpy as np
+from numpy.linalg import lstsq
+
+# prysm imports
+from prysm.polynomials import noll_to_nm, zernike_nm
+from prysm.coordinates import make_xy_grid, cart_to_polar
+
+# ============================================================================
+# Atomizer Zernike (copy from extract_zernike.py for self-contained comparison)
+# ============================================================================
+
+def atomizer_noll_indices(j):
+    if j < 1:
+        raise ValueError
+    count, n = 0, 0
+    while True:
+        if n == 0:
+            ms = [0]
+        elif n % 2 == 0:
+            ms = [0] + [m for k in range(1, n // 2 + 1) for m in (-2 * k, 2 * k)]
+        else:
+            ms = [m for k in range(0, (n + 1) // 2) for m in (-(2 * k + 1), (2 * k + 1))]
+        for m in ms:
+            count += 1
+            if count == j:
+                return n, m
+        n += 1
+
+def atomizer_zernike_radial(n, m, r):
+    R = np.zeros_like(r)
+    m_abs = abs(m)
+    for s in range((n - m_abs) // 2 + 1):
+        coef = ((-1)**s * factorial(n - s) /
+                (factorial(s) * factorial((n + m_abs)//2 - s) * factorial((n - m_abs)//2 - s)))
+        R += coef * r**(n - 2*s)
+    return R
+
+def atomizer_zernike_noll(j, r, theta):
+    n, m = atomizer_noll_indices(j)
+    R = atomizer_zernike_radial(n, m, r)
+    if m == 0:
+        return R
+    elif m > 0:
+        return R * np.cos(m * theta)
+    else:
+        return R * np.sin(-m * theta)
+
+def zernike_name(j):
+    n, m = atomizer_noll_indices(j)
+    names = {
+        (0,0):"Piston",(1,-1):"Tilt X",(1,1):"Tilt Y",
+        (2,0):"Defocus",(2,-2):"Astig 45°",(2,2):"Astig 0°",
+        (3,-1):"Coma X",(3,1):"Coma Y",(3,-3):"Trefoil X",(3,3):"Trefoil Y",
+        (4,0):"Spherical",(4,-2):"2nd Astig X",(4,2):"2nd Astig Y",
+        (6,0):"2nd Sph",
+    }
+    return names.get((n, m), f"Z{j}")
+
+
+# ============================================================================
+# Test 1: Noll Index Mapping Agreement
+# ============================================================================
+
+def test_noll_mapping(n_modes=50):
+    """Compare Noll index → (n, m) between Atomizer and prysm."""
+    print("=" * 70)
+    print("TEST 1: Noll Index Mapping Agreement")
+    print("=" * 70)
+
+    mismatches = []
+    for j in range(1, n_modes + 1):
+        # Atomizer
+        n_ato, m_ato = atomizer_noll_indices(j)
+
+        # prysm
+        n_pry, m_pry = noll_to_nm(j)
+
+        match = (n_ato == n_pry and m_ato == m_pry)
+        if not match:
+            mismatches.append((j, (n_ato, m_ato), (n_pry, m_pry)))
+            print(f"  ❌ j={j}: Atomizer=({n_ato},{m_ato}) vs prysm=({n_pry},{m_pry})")
+
+    if not mismatches:
+        print(f"  ✅ All {n_modes} Noll indices match perfectly")
+    else:
+        print(f"  ❌ {len(mismatches)} mismatches found!")
+
+    return len(mismatches) == 0, mismatches
+
+
+# ============================================================================
+# Test 2: Polynomial Evaluation Agreement
+# ============================================================================
+
+def test_polynomial_evaluation(n_modes=50, n_points=5000):
+    """Compare Zernike polynomial values at same (r, θ) points."""
+    print("\n" + "=" * 70)
+    print("TEST 2: Polynomial Evaluation Agreement")
+    print("=" * 70)
+
+    # Generate test points on unit disk
+    rng = np.random.default_rng(42)
+    r = rng.uniform(0, 1, n_points)
+    theta = rng.uniform(0, 2 * np.pi, n_points)
+
+    max_diffs = []
+    rms_diffs = []
+    all_pass = True
+
+    print(f"\n  {'j':>4} {'Name':>20} {'Max Diff':>12} {'RMS Diff':>12} {'Status':>8}")
+    print(f"  {'-'*4} {'-'*20} {'-'*12} {'-'*12} {'-'*8}")
+
+    for j in range(1, n_modes + 1):
+        # Atomizer evaluation
+        z_ato = atomizer_zernike_noll(j, r, theta)
+
+        # prysm evaluation
+        n, m = noll_to_nm(j)
+        z_pry = zernike_nm(n, m, r, theta, norm=False)
+
+        diff = np.abs(z_ato - z_pry)
+        max_diff = np.max(diff)
+        rms_diff = np.sqrt(np.mean(diff**2))
+
+        max_diffs.append(max_diff)
+        rms_diffs.append(rms_diff)
+
+        passed = max_diff < 1e-10
+        if not passed:
+            all_pass = False
+
+        status = "✅" if passed else "❌"
+        if max_diff > 1e-14 or j <= 11:
+            print(f"  Z{j:>3} {zernike_name(j):>20} {max_diff:>12.2e} {rms_diff:>12.2e} {status:>8}")
+
+    print(f"\n  Overall max diff: {max(max_diffs):.2e}")
+    print(f"  Overall RMS diff: {np.sqrt(np.mean(np.array(rms_diffs)**2)):.2e}")
+    print(f"  Result: {'✅ ALL MATCH' if all_pass else '❌ DISCREPANCIES FOUND'}")
+
+    return all_pass, max_diffs, rms_diffs
+
+
+# ============================================================================
+# Test 3: Coefficient Recovery Agreement
+# ============================================================================
+
+def test_coefficient_recovery(n_modes=50, n_points=2000):
+    """
+    Generate surface with known coefficients, fit with both implementations,
+    compare recovered coefficients.
+    """
+    print("\n" + "=" * 70)
+    print("TEST 3: Coefficient Recovery Agreement")
+    print("=" * 70)
+
+    # Generate random test points on unit disk
+    rng = np.random.default_rng(42)
+    x = rng.uniform(-1, 1, n_points * 2)
+    y = rng.uniform(-1, 1, n_points * 2)
+    mask = x**2 + y**2 <= 1.0
+    x = x[mask][:n_points]
+    y = y[mask][:n_points]
+    r = np.sqrt(x**2 + y**2)
+    theta = np.arctan2(y, x)
+
+    # Known coefficients (realistic mirror)
+    input_coeffs = {5: 80, 6: 45, 7: 30, 8: 20, 9: 15, 11: 10, 13: 5, 16: 3, 22: 2}
+
+    # Generate surface using Atomizer math
+    surface = np.zeros(len(x))
+    for j, amp in input_coeffs.items():
+        surface += amp * atomizer_zernike_noll(j, r, theta)
+
+    # Fit with Atomizer basis
+    Z_ato = np.zeros((len(x), n_modes))
+    for j in range(1, n_modes + 1):
+        Z_ato[:, j-1] = atomizer_zernike_noll(j, r, theta)
+    coeffs_ato, _, _, _ = lstsq(Z_ato, surface, rcond=None)
+
+    # Fit with prysm basis
+    Z_pry = np.zeros((len(x), n_modes))
+    for j in range(1, n_modes + 1):
+        n, m = noll_to_nm(j)
+        Z_pry[:, j-1] = zernike_nm(n, m, r, theta, norm=False)
+    coeffs_pry, _, _, _ = lstsq(Z_pry, surface, rcond=None)
+
+    # Compare
+    print(f"\n  {'j':>4} {'Name':>20} {'Input':>10} {'Atomizer':>12} {'prysm':>12} {'Ato-prysm':>12} {'Status':>8}")
+    print(f"  {'-'*4} {'-'*20} {'-'*10} {'-'*12} {'-'*12} {'-'*12} {'-'*8}")
+
+    max_diff = 0
+    all_pass = True
+
+    for j in range(1, n_modes + 1):
+        inp = input_coeffs.get(j, 0.0)
+        ato = coeffs_ato[j-1]
+        pry = coeffs_pry[j-1]
+        diff = abs(ato - pry)
+        max_diff = max(max_diff, diff)
+
+        passed = diff < 1e-8
+        if not passed:
+            all_pass = False
+
+        if abs(inp) > 0.01 or diff > 1e-10:
+            status = "✅" if passed else "❌"
+            print(f"  Z{j:>3} {zernike_name(j):>20} {inp:>10.3f} {ato:>12.6f} {pry:>12.6f} {diff:>12.2e} {status:>8}")
+
+    print(f"\n  Max Atomizer-prysm difference: {max_diff:.2e}")
+    print(f"  Result: {'✅ IMPLEMENTATIONS AGREE' if all_pass else '❌ DISCREPANCIES FOUND'}")
+
+    return all_pass, coeffs_ato, coeffs_pry
+
+
+# ============================================================================
+# Test 4: RMS Wavefront Error Agreement
+# ============================================================================
+
+def test_rms_agreement(n_modes=50, n_points=5000):
+    """Compare RMS WFE computation between implementations."""
+    print("\n" + "=" * 70)
+    print("TEST 4: RMS Wavefront Error Agreement")
+    print("=" * 70)
+
+    rng = np.random.default_rng(42)
+    x = rng.uniform(-1, 1, n_points * 2)
+    y = rng.uniform(-1, 1, n_points * 2)
+    mask = x**2 + y**2 <= 1.0
+    x = x[mask][:n_points]
+    y = y[mask][:n_points]
+    r = np.sqrt(x**2 + y**2)
+    theta = np.arctan2(y, x)
+
+    # Test multiple coefficient sets
+    test_sets = {
+        "Single astig": {5: 100},
+        "Gravity-like": {5: 80, 6: 45, 7: 30, 8: 20, 9: 15, 11: 10},
+        "High-order": {22: 50, 37: 30},
+        "All modes": {j: 100/j for j in range(5, 51)},
+    }
+
+    all_pass = True
+    print(f"\n  {'Test':>20} {'RMS Atomizer':>14} {'RMS prysm':>14} {'Diff':>12} {'Status':>8}")
+    print(f"  {'-'*20} {'-'*14} {'-'*14} {'-'*12} {'-'*8}")
+
+    for name, coeffs in test_sets.items():
+        # Build surface with Atomizer
+        surf_ato = np.zeros(len(x))
+        for j, amp in coeffs.items():
+            surf_ato += amp * atomizer_zernike_noll(j, r, theta)
+
+        # Build surface with prysm
+        surf_pry = np.zeros(len(x))
+        for j, amp in coeffs.items():
+            n, m = noll_to_nm(j)
+            surf_pry += amp * zernike_nm(n, m, r, theta, norm=False)
+
+        rms_ato = np.sqrt(np.mean(surf_ato**2))
+        rms_pry = np.sqrt(np.mean(surf_pry**2))
+        diff = abs(rms_ato - rms_pry)
+
+        passed = diff < 1e-8
+        if not passed:
+            all_pass = False
+
+        status = "✅" if passed else "❌"
+        print(f"  {name:>20} {rms_ato:>14.6f} {rms_pry:>14.6f} {diff:>12.2e} {status:>8}")
+
+    print(f"\n  Result: {'✅ RMS VALUES AGREE' if all_pass else '❌ DISCREPANCIES FOUND'}")
+    return all_pass
+
+
+# ============================================================================
+# Generate Phase 2 Report Figures
+# ============================================================================
+
+def generate_phase2_figures(output_dir, n_modes=50):
+    """Generate figures for Phase 2 report."""
+    import matplotlib
+    matplotlib.use('Agg')
+    import matplotlib.pyplot as plt
+
+    output_dir = Path(output_dir)
+    output_dir.mkdir(parents=True, exist_ok=True)
+
+    # --- Figure: Polynomial evaluation comparison ---
+    rng = np.random.default_rng(42)
+    r = rng.uniform(0, 1, 5000)
+    theta = rng.uniform(0, 2*np.pi, 5000)
+
+    max_diffs = []
+    for j in range(1, n_modes + 1):
+        z_ato = atomizer_zernike_noll(j, r, theta)
+        n, m = noll_to_nm(j)
+        z_pry = zernike_nm(n, m, r, theta, norm=False)
+        max_diffs.append(np.max(np.abs(z_ato - z_pry)))
+
+    fig, ax = plt.subplots(figsize=(14, 5))
+    colors = ['#4CAF50' if d < 1e-10 else '#F44336' for d in max_diffs]
+    ax.bar(range(1, 51), max_diffs, color=colors, alpha=0.85)
+    ax.set_xlabel('Noll Index j', fontsize=11)
+    ax.set_ylabel('Max |Atomizer - prysm|', fontsize=11)
+    ax.set_title('Phase 2: Polynomial Evaluation Agreement — Atomizer vs prysm\n(5000 random points on unit disk, 50 modes)',
+                 fontsize=13, fontweight='bold')
+    ax.set_yscale('symlog', linthresh=1e-16)
+    ax.axhline(y=1e-10, color='red', linestyle='--', alpha=0.5, label='Threshold (1e-10)')
+    ax.legend()
+    ax.grid(axis='y', alpha=0.3)
+    plt.tight_layout()
+    fig.savefig(output_dir / "fig7_prysm_polynomial_agreement.png", dpi=150, bbox_inches='tight')
+    plt.close()
+    print(f"  ✅ fig7_prysm_polynomial_agreement.png")
+
+    # --- Figure: Coefficient recovery comparison ---
+    rng = np.random.default_rng(42)
+    x = rng.uniform(-1, 1, 4000)
+    y = rng.uniform(-1, 1, 4000)
+    mask = x**2 + y**2 <= 1.0
+    x, y = x[mask][:2000], y[mask][:2000]
+    r2 = np.sqrt(x**2 + y**2)
+    th2 = np.arctan2(y, x)
+
+    input_coeffs = {5: 80, 6: 45, 7: 30, 8: 20, 9: 15, 11: 10, 13: 5, 16: 3, 22: 2}
+    surface = sum(amp * atomizer_zernike_noll(j, r2, th2) for j, amp in input_coeffs.items())
+
+    # Fit with both
+    Z_ato = np.column_stack([atomizer_zernike_noll(j, r2, th2) for j in range(1, 51)])
+    Z_pry = np.column_stack([zernike_nm(*noll_to_nm(j), r2, th2, norm=False) for j in range(1, 51)])
+    c_ato, _, _, _ = lstsq(Z_ato, surface, rcond=None)
+    c_pry, _, _, _ = lstsq(Z_pry, surface, rcond=None)
+
+    fig, (ax1, ax2) = plt.subplots(1, 2, figsize=(16, 6))
+
+    modes = np.arange(1, 51)
+    input_arr = np.array([input_coeffs.get(j, 0) for j in modes])
+
+    ax1.bar(modes - 0.3, input_arr, 0.3, label='Input (Truth)', color='#2196F3', alpha=0.85)
+    ax1.bar(modes, c_ato, 0.3, label='Atomizer', color='#FF9800', alpha=0.85)
+    ax1.bar(modes + 0.3, c_pry, 0.3, label='prysm', color='#4CAF50', alpha=0.85)
+    ax1.set_xlabel('Noll Index j', fontsize=11)
+    ax1.set_ylabel('Coefficient (nm)', fontsize=11)
+    ax1.set_title('Coefficient Recovery: Truth vs Atomizer vs prysm', fontsize=12, fontweight='bold')
+    ax1.legend()
+    ax1.grid(axis='y', alpha=0.3)
+
+    diff = np.abs(c_ato - c_pry)
+    ax2.bar(modes, diff, color='#9C27B0', alpha=0.85)
+    ax2.set_xlabel('Noll Index j', fontsize=11)
+    ax2.set_ylabel('|Atomizer - prysm| (nm)', fontsize=11)
+    ax2.set_title('Inter-Implementation Difference\n(should be ~machine epsilon)', fontsize=12, fontweight='bold')
+    ax2.set_yscale('symlog', linthresh=1e-14)
+    ax2.grid(axis='y', alpha=0.3)
+
+    plt.tight_layout()
+    fig.savefig(output_dir / "fig8_prysm_coefficient_agreement.png", dpi=150, bbox_inches='tight')
+    plt.close()
+    print(f"  ✅ fig8_prysm_coefficient_agreement.png")
+
+    # --- Figure: Side-by-side surface evaluation ---
+    n_grid = 200
+    x_g = np.linspace(-1, 1, n_grid)
+    y_g = np.linspace(-1, 1, n_grid)
+    xx, yy = np.meshgrid(x_g, y_g)
+    rr = np.sqrt(xx**2 + yy**2)
+    tt = np.arctan2(yy, xx)
+    mask_g = rr <= 1.0
+
+    # Evaluate Z7 (coma) with both
+    j_test = 7
+    z_ato_g = np.full_like(xx, np.nan)
+    z_pry_g = np.full_like(xx, np.nan)
+    z_ato_g[mask_g] = atomizer_zernike_noll(j_test, rr[mask_g], tt[mask_g])
+    n7, m7 = noll_to_nm(j_test)
+    z_pry_g[mask_g] = zernike_nm(n7, m7, rr[mask_g], tt[mask_g], norm=False)
+
+    diff_g = np.full_like(xx, np.nan)
+    diff_g[mask_g] = z_ato_g[mask_g] - z_pry_g[mask_g]
+
+    fig, axes = plt.subplots(1, 3, figsize=(18, 5.5))
+
+    for ax, data, title, cmap in zip(
+        axes,
+        [z_ato_g, z_pry_g, diff_g],
+        [f'Atomizer Z{j_test} (Coma X)', f'prysm Z{j_test} (Coma X)', 'Difference'],
+        ['RdBu_r', 'RdBu_r', 'RdBu_r']
+    ):
+        im = ax.imshow(data, extent=[-1, 1, -1, 1], cmap=cmap, origin='lower')
+        ax.set_title(title, fontsize=12, fontweight='bold')
+        ax.set_xlabel('x (normalized)')
+        ax.set_ylabel('y (normalized)')
+        plt.colorbar(im, ax=ax, shrink=0.8)
+
+    fig.suptitle('Phase 2: Zernike Polynomial Visual Comparison — Atomizer vs prysm',
+                 fontsize=13, fontweight='bold', y=1.02)
+    plt.tight_layout()
+    fig.savefig(output_dir / "fig9_prysm_surface_comparison.png", dpi=150, bbox_inches='tight')
+    plt.close()
+    print(f"  ✅ fig9_prysm_surface_comparison.png")
+
+
+# ============================================================================
+# Main
+# ============================================================================
+
+def main():
+    output_dir = Path(sys.argv[1]) if len(sys.argv) > 1 else Path("/home/papa/obsidian-vault/2-Projects/P-Zernike-Validation/figures")
+
+    print("=" * 70)
+    print("ZERNIKE CROSS-VALIDATION: Atomizer vs prysm")
+    print("=" * 70)
+    print(f"prysm version: 0.21.1")
+    print()
+
+    results = {}
+
+    # Test 1
+    passed, mismatches = test_noll_mapping()
+    results["noll_mapping"] = {"passed": passed, "mismatches": len(mismatches)}
+
+    # Test 2
+    passed, max_diffs, rms_diffs = test_polynomial_evaluation()
+    results["polynomial_eval"] = {"passed": passed, "max_diff": float(max(max_diffs))}
+
+    # Test 3
+    passed, c_ato, c_pry = test_coefficient_recovery()
+    results["coefficient_recovery"] = {"passed": passed, "max_diff": float(max(abs(c_ato - c_pry)))}
+
+    # Test 4
+    passed = test_rms_agreement()
+    results["rms_agreement"] = {"passed": passed}
+
+    # Generate figures
+    print("\n" + "=" * 70)
+    print("GENERATING PHASE 2 FIGURES")
+    print("=" * 70)
+    generate_phase2_figures(output_dir)
+
+    # Summary
+    all_passed = all(v["passed"] for v in results.values())
+    print("\n" + "=" * 70)
+    print("CROSS-VALIDATION SUMMARY")
+    print("=" * 70)
+    for test, result in results.items():
+        status = "✅ PASS" if result["passed"] else "❌ FAIL"
+        print(f"  {test:>25}: {status}")
+    print(f"\n  Overall: {'✅ ATOMIZER MATCHES PRYSM' if all_passed else '❌ DISCREPANCIES FOUND'}")
+
+    # Save results
+    results_path = output_dir / "phase2_cross_validation_results.json"
+    with open(results_path, 'w') as f:
+        json.dump(results, f, indent=2)
+    print(f"\n  Results saved: {results_path}")
+
+    return 0 if all_passed else 1
+
+
+if __name__ == "__main__":
+    sys.exit(main())

tools/generate_synthetic_wfe.py

@@ -0,0 +1,643 @@
+#!/usr/bin/env python3
+"""
+Synthetic WFE Surface Generator for Zernike Pipeline Validation
+================================================================
+
+Generates synthetic FEA-style CSV files with known Zernike content for
+validating the WFE_from_CSV_OPD tool. Output matches the exact format
+used by Atomizer's Zernike analysis pipeline.
+
+Output CSV format (matching WFE_from_CSV_OPD):
+    ,X,Y,Z,DX,DY,DZ
+    0, x_meters, y_meters, z_meters, dx_meters, dy_meters, dz_meters
+
+Where:
+    X, Y, Z = undeformed node positions (meters)
+    DX, DY, DZ = displacement vector (meters)
+    The tool computes OPD from displacements (rigorous method accounts for
+    lateral DX/DY via interpolation on the reference surface).
+
+Two operating modes:
+    1. PURE SYNTHETIC: Generate a flat/spherical mirror mesh + inject known
+       Zernike displacements as DZ. Ground truth is exact.
+    2. INJECT INTO REAL: Load a real FEA CSV, zero out DZ, then inject known
+       Zernike content. Tests the full pipeline including real mesh geometry.
+
+Usage:
+    # Pure synthetic (flat mirror, M1 params)
+    python generate_synthetic_wfe.py --zernike "5:100,7:50" -o test.csv
+
+    # Pure synthetic with spherical surface
+    python generate_synthetic_wfe.py --preset realistic --surface sphere --roc 5000 -o test.csv
+
+    # Inject into real M2 data
+    python generate_synthetic_wfe.py --inject m2_data.csv --zernike "5:100" -o test_injected.csv
+
+    # Full validation suite
+    python generate_synthetic_wfe.py --suite -d validation_suite/
+
+    # Full suite with injection into real mesh
+    python generate_synthetic_wfe.py --suite --inject m2_data.csv -d validation_suite/
+
+Author: Mario (Atomizer V&V)
+Created: 2026-03-09
+Project: P-Zernike-Validation (GigaBIT M1)
+"""
+
+import sys
+import os
+import argparse
+import json
+import csv
+from pathlib import Path
+from math import factorial
+from typing import Dict, List, Tuple, Optional
+import numpy as np
+
+# ============================================================================
+# Zernike Polynomial Mathematics (matching extract_zernike.py conventions)
+# ============================================================================
+
+def noll_indices(j: int) -> Tuple[int, int]:
+    """Convert Noll index j to radial order n and azimuthal frequency m."""
+    if j < 1:
+        raise ValueError("Noll index j must be >= 1")
+    count = 0
+    n = 0
+    while True:
+        if n == 0:
+            ms = [0]
+        elif n % 2 == 0:
+            ms = [0] + [m for k in range(1, n // 2 + 1) for m in (-2 * k, 2 * k)]
+        else:
+            ms = [m for k in range(0, (n + 1) // 2) for m in (-(2 * k + 1), (2 * k + 1))]
+        for m in ms:
+            count += 1
+            if count == j:
+                return n, m
+        n += 1
+
+
+def zernike_radial(n: int, m: int, r: np.ndarray) -> np.ndarray:
+    """Compute radial component R_n^m(r)."""
+    R = np.zeros_like(r)
+    m_abs = abs(m)
+    for s in range((n - m_abs) // 2 + 1):
+        coef = ((-1) ** s * factorial(n - s) /
+                (factorial(s) *
+                 factorial((n + m_abs) // 2 - s) *
+                 factorial((n - m_abs) // 2 - s)))
+        R += coef * r ** (n - 2 * s)
+    return R
+
+
+def zernike_noll(j: int, r: np.ndarray, theta: np.ndarray) -> np.ndarray:
+    """Evaluate Noll-indexed Zernike polynomial Z_j(r, theta)."""
+    n, m = noll_indices(j)
+    R = zernike_radial(n, m, r)
+    if m == 0:
+        return R
+    elif m > 0:
+        return R * np.cos(m * theta)
+    else:
+        return R * np.sin(-m * theta)
+
+
+def zernike_name(j: int) -> str:
+    """Get common optical name for Zernike mode."""
+    n, m = noll_indices(j)
+    names = {
+        (0, 0): "Piston",
+        (1, -1): "Tilt X", (1, 1): "Tilt Y",
+        (2, 0): "Defocus",
+        (2, -2): "Astigmatism 45°", (2, 2): "Astigmatism 0°",
+        (3, -1): "Coma X", (3, 1): "Coma Y",
+        (3, -3): "Trefoil X", (3, 3): "Trefoil Y",
+        (4, 0): "Primary Spherical",
+        (4, -2): "2nd Astig X", (4, 2): "2nd Astig Y",
+        (4, -4): "Quadrafoil X", (4, 4): "Quadrafoil Y",
+        (5, -1): "2nd Coma X", (5, 1): "2nd Coma Y",
+        (5, -3): "2nd Trefoil X", (5, 3): "2nd Trefoil Y",
+        (5, -5): "Pentafoil X", (5, 5): "Pentafoil Y",
+        (6, 0): "2nd Spherical",
+    }
+    if (n, m) in names:
+        return names[(n, m)]
+    return f"Z({n},{m:+d})"
+
+
+# ============================================================================
+# Mesh Generation
+# ============================================================================
+
+def generate_mesh(
+    diameter_mm: float = 1200.0,
+    inner_radius_mm: float = 0.0,
+    n_rings: int = 20,
+    surface_type: str = "flat",
+    roc_mm: float = 0.0,
+    conic: float = 0.0,
+) -> Tuple[np.ndarray, np.ndarray, np.ndarray]:
+    """
+    Generate a mirror mesh with realistic node distribution.
+
+    Args:
+        diameter_mm: Mirror outer diameter in mm
+        inner_radius_mm: Inner radius (0 for full disk)
+        n_rings: Number of radial rings
+        surface_type: "flat", "sphere", "parabola"
+        roc_mm: Radius of curvature in mm (for sphere/parabola)
+        conic: Conic constant (-1 = parabola, 0 = sphere)
+
+    Returns:
+        x_m, y_m, z_m: Node positions in meters
+    """
+    outer_r_mm = diameter_mm / 2.0
+
+    # Generate rings with increasing node count
+    all_x = []
+    all_y = []
+
+    if inner_radius_mm > 0:
+        r_values = np.linspace(inner_radius_mm, outer_r_mm, n_rings)
+    else:
+        # Include center point
+        r_values = np.linspace(0, outer_r_mm, n_rings + 1)
+
+    for i, r in enumerate(r_values):
+        if r < 1e-6:
+            all_x.append(0.0)
+            all_y.append(0.0)
+        else:
+            # More nodes at larger radii (like real FEA mesh)
+            n_pts = max(6, int(6 + i * 3))
+            angles = np.linspace(0, 2 * np.pi, n_pts, endpoint=False)
+            for a in angles:
+                all_x.append(r * np.cos(a))
+                all_y.append(r * np.sin(a))
+
+    x_mm = np.array(all_x)
+    y_mm = np.array(all_y)
+
+    # Compute Z (surface sag)
+    if surface_type == "flat":
+        z_mm = np.zeros_like(x_mm)
+    elif surface_type in ("sphere", "parabola"):
+        if roc_mm <= 0:
+            raise ValueError("roc_mm must be > 0 for curved surfaces")
+        r2 = x_mm**2 + y_mm**2
+        if surface_type == "sphere":
+            # z = R - sqrt(R^2 - r^2)
+            z_mm = roc_mm - np.sqrt(roc_mm**2 - r2)
+        else:
+            # Parabola: z = r^2 / (2R)
+            z_mm = r2 / (2 * roc_mm)
+    else:
+        raise ValueError(f"Unknown surface_type: {surface_type}")
+
+    # Convert to meters
+    return x_mm / 1000.0, y_mm / 1000.0, z_mm / 1000.0
+
+
+def load_real_mesh(csv_path: str) -> Tuple[np.ndarray, np.ndarray, np.ndarray]:
+    """
+    Load node positions from a real FEA CSV file.
+
+    Returns:
+        x_m, y_m, z_m: Node positions in meters
+    """
+    x_list, y_list, z_list = [], [], []
+    with open(csv_path) as f:
+        reader = csv.DictReader(f)
+        for row in reader:
+            x_list.append(float(row['X']))
+            y_list.append(float(row['Y']))
+            z_list.append(float(row['Z']))
+
+    return np.array(x_list), np.array(y_list), np.array(z_list)
+
+
+# ============================================================================
+# Surface Synthesis
+# ============================================================================
+
+def synthesize_displacements(
+    x_m: np.ndarray,
+    y_m: np.ndarray,
+    coefficients: Dict[int, float],
+    diameter_mm: float = None,
+    noise_rms_nm: float = 0.0,
+    include_lateral: bool = False,
+    seed: int = 42,
+) -> Tuple[np.ndarray, np.ndarray, np.ndarray, Dict]:
+    """
+    Generate synthetic displacement vectors from Zernike coefficients.
+
+    The Zernike content is injected into DZ (surface-normal displacement).
+    DX and DY are set to zero unless include_lateral is True (adds small
+    realistic lateral displacements).
+
+    Args:
+        x_m, y_m: Node positions in meters
+        coefficients: {Noll_index: amplitude_nm}
+        diameter_mm: Mirror diameter (auto-detected if None)
+        noise_rms_nm: Gaussian noise RMS in nm
+        include_lateral: Add small realistic DX/DY
+        seed: Random seed
+
+    Returns:
+        dx_m, dy_m, dz_m: Displacement vectors in meters
+        metadata: Ground truth info
+    """
+    # Auto-detect diameter from mesh
+    if diameter_mm is None:
+        r_mm = np.sqrt(x_m**2 + y_m**2) * 1000.0
+        diameter_mm = 2.0 * np.max(r_mm)
+
+    outer_r_m = diameter_mm / 2000.0  # meters
+
+    # Normalize to unit disk
+    r_m = np.sqrt(x_m**2 + y_m**2)
+    r_norm = r_m / outer_r_m
+    theta = np.arctan2(y_m, x_m)
+
+    # Build DZ from Zernike modes (in nm, then convert to meters)
+    dz_nm = np.zeros_like(x_m)
+    for j, amp_nm in coefficients.items():
+        Z_j = zernike_noll(j, r_norm, theta)
+        dz_nm += amp_nm * Z_j
+
+    rms_clean_nm = np.sqrt(np.mean(dz_nm**2))
+
+    # Add noise
+    rng = np.random.default_rng(seed)
+    if noise_rms_nm > 0:
+        noise = rng.normal(0, noise_rms_nm, size=dz_nm.shape)
+        dz_nm += noise
+
+    rms_noisy_nm = np.sqrt(np.mean(dz_nm**2))
+
+    # Convert to meters
+    dz_m = dz_nm * 1e-9
+
+    # DX, DY
+    if include_lateral:
+        # Small lateral displacements (~1/10 of DZ magnitude)
+        scale = np.max(np.abs(dz_m)) * 0.1
+        dx_m = rng.normal(0, scale, size=x_m.shape)
+        dy_m = rng.normal(0, scale, size=y_m.shape)
+    else:
+        dx_m = np.zeros_like(x_m)
+        dy_m = np.zeros_like(y_m)
+
+    metadata = {
+        "input_coefficients": {str(j): amp for j, amp in coefficients.items()},
+        "coefficient_names": {str(j): zernike_name(j) for j in coefficients},
+        "n_points": len(x_m),
+        "diameter_mm": float(diameter_mm),
+        "rms_nm_clean": float(rms_clean_nm),
+        "rms_nm_with_noise": float(rms_noisy_nm),
+        "noise_rms_nm": noise_rms_nm,
+        "include_lateral": include_lateral,
+        "seed": seed,
+        "units": {
+            "positions": "meters",
+            "displacements": "meters",
+            "coefficients": "nanometers",
+        }
+    }
+
+    return dx_m, dy_m, dz_m, metadata
+
+
+# ============================================================================
+# Output (matching WFE_from_CSV_OPD format exactly)
+# ============================================================================
+
+def write_csv_fea(
+    filepath: str,
+    x_m: np.ndarray,
+    y_m: np.ndarray,
+    z_m: np.ndarray,
+    dx_m: np.ndarray,
+    dy_m: np.ndarray,
+    dz_m: np.ndarray,
+):
+    """
+    Write FEA-style CSV matching the WFE_from_CSV_OPD input format.
+
+    Format:
+        ,X,Y,Z,DX,DY,DZ
+        0,x,y,z,dx,dy,dz
+        1,...
+    """
+    filepath = Path(filepath)
+    filepath.parent.mkdir(parents=True, exist_ok=True)
+
+    with open(filepath, 'w', newline='') as f:
+        writer = csv.writer(f)
+        writer.writerow(['', 'X', 'Y', 'Z', 'DX', 'DY', 'DZ'])
+        for i in range(len(x_m)):
+            writer.writerow([
+                i,
+                f"{x_m[i]:.16e}",
+                f"{y_m[i]:.16e}",
+                f"{z_m[i]:.16e}",
+                f"{dx_m[i]:.5e}",
+                f"{dy_m[i]:.16e}",
+                f"{dz_m[i]:.16e}",
+            ])
+
+    print(f"  Written: {filepath} ({len(x_m)} nodes)")
+
+
+def write_metadata(filepath: str, metadata: Dict):
+    """Write ground truth metadata as JSON."""
+    filepath = Path(filepath)
+    filepath.parent.mkdir(parents=True, exist_ok=True)
+    with open(filepath, 'w') as f:
+        json.dump(metadata, f, indent=2)
+    print(f"  Metadata: {filepath}")
+
+
+# ============================================================================
+# Preset Test Cases
+# ============================================================================
+
+# Realistic M1 mirror: typical gravity-induced deformation pattern
+PRESET_REALISTIC = {
+    5: 80.0,    # Astigmatism 0° — dominant gravity mode
+    6: 45.0,    # Astigmatism 45°
+    7: 30.0,    # Coma X
+    8: 20.0,    # Coma Y
+    9: 15.0,    # Trefoil X
+    11: 10.0,   # Primary Spherical
+    13: 5.0,    # Secondary Astigmatism
+    16: 3.0,    # Secondary Coma
+    22: 2.0,    # Secondary Spherical
+}
+
+# Single-mode test cases
+SINGLE_MODE_TESTS = {
+    "Z05_astig_0deg":    {5: 100.0},
+    "Z06_astig_45deg":   {6: 100.0},
+    "Z07_coma_x":        {7: 100.0},
+    "Z08_coma_y":        {8: 100.0},
+    "Z09_trefoil_x":     {9: 100.0},
+    "Z10_trefoil_y":     {10: 100.0},
+    "Z11_spherical":     {11: 100.0},
+    "Z22_2nd_spherical": {22: 50.0},
+    "Z37_high_order":    {37: 30.0},
+}
+
+# Edge case tests
+EDGE_CASE_TESTS = {
+    "near_zero":        {5: 0.1, 7: 0.05, 11: 0.01},
+    "large_amplitude":  {5: 500.0, 7: 300.0},
+    "many_modes":       {j: 100.0 / j for j in range(5, 51)},
+}
+
+
+def generate_single_case(
+    name: str,
+    coeffs: Dict[int, float],
+    output_dir: Path,
+    x_m: np.ndarray,
+    y_m: np.ndarray,
+    z_m: np.ndarray,
+    diameter_mm: float,
+    noise_rms_nm: float = 0.0,
+    include_lateral: bool = False,
+):
+    """Generate a single test case."""
+    print(f"\nGenerating: {name}")
+    dx, dy, dz, meta = synthesize_displacements(
+        x_m, y_m, coeffs, diameter_mm,
+        noise_rms_nm=noise_rms_nm,
+        include_lateral=include_lateral,
+    )
+    write_csv_fea(output_dir / f"{name}.csv", x_m, y_m, z_m, dx, dy, dz)
+    write_metadata(output_dir / f"{name}_truth.json", meta)
+    return meta
+
+
+def generate_test_suite(
+    output_dir: str,
+    inject_csv: str = None,
+    diameter_mm: float = None,
+    inner_radius_mm: float = 0.0,
+    surface_type: str = "flat",
+    roc_mm: float = 0.0,
+):
+    """Generate the full validation test suite."""
+    output_dir = Path(output_dir)
+    output_dir.mkdir(parents=True, exist_ok=True)
+
+    # Get mesh
+    if inject_csv:
+        print(f"Loading real mesh from: {inject_csv}")
+        x_m, y_m, z_m = load_real_mesh(inject_csv)
+        if diameter_mm is None:
+            r_mm = np.sqrt(x_m**2 + y_m**2) * 1000.0
+            diameter_mm = 2.0 * np.max(r_mm)
+        mesh_source = f"real FEA mesh ({inject_csv})"
+    else:
+        if diameter_mm is None:
+            diameter_mm = 1200.0
+        x_m, y_m, z_m = generate_mesh(
+            diameter_mm, inner_radius_mm,
+            n_rings=25, surface_type=surface_type, roc_mm=roc_mm
+        )
+        mesh_source = f"synthetic {surface_type} (D={diameter_mm}mm)"
+
+    print(f"\n  Mesh: {mesh_source}")
+    print(f"  Nodes: {len(x_m)}")
+    print(f"  Diameter: {diameter_mm:.1f} mm")
+
+    all_cases = {}
+
+    # 1. Single-mode tests
+    print("\n=== Single-Mode Tests ===")
+    for name, coeffs in SINGLE_MODE_TESTS.items():
+        meta = generate_single_case(name, coeffs, output_dir, x_m, y_m, z_m, diameter_mm)
+        all_cases[name] = meta
+
+    # 2. Realistic multi-mode
+    print("\n=== Realistic Multi-Mode ===")
+    meta = generate_single_case("realistic_gravity", PRESET_REALISTIC, output_dir,
+                                 x_m, y_m, z_m, diameter_mm)
+    all_cases["realistic_gravity"] = meta
+
+    # 3. Noisy versions
+    print("\n=== Noisy Tests ===")
+    for noise_level in [1.0, 5.0, 10.0]:
+        name = f"realistic_noise_{noise_level:.0f}nm"
+        meta = generate_single_case(name, PRESET_REALISTIC, output_dir,
+                                     x_m, y_m, z_m, diameter_mm,
+                                     noise_rms_nm=noise_level)
+        all_cases[name] = meta
+
+    # 4. Edge cases
+    print("\n=== Edge Case Tests ===")
+    for name, coeffs in EDGE_CASE_TESTS.items():
+        meta = generate_single_case(name, coeffs, output_dir, x_m, y_m, z_m, diameter_mm)
+        all_cases[name] = meta
+
+    # 5. With lateral displacement (tests rigorous OPD method)
+    print("\n=== Lateral Displacement Test ===")
+    meta = generate_single_case("realistic_with_lateral", PRESET_REALISTIC, output_dir,
+                                 x_m, y_m, z_m, diameter_mm, include_lateral=True)
+    all_cases["realistic_with_lateral"] = meta
+
+    # Summary
+    print(f"\n{'='*60}")
+    print(f"Generated {len(all_cases)} test cases in: {output_dir}")
+    print(f"Mesh source: {mesh_source}")
+    print(f"{'='*60}")
+
+    # Write suite manifest
+    manifest = {
+        "suite": "Zernike Pipeline Validation",
+        "generated": "2026-03-09",
+        "mesh_source": mesh_source,
+        "diameter_mm": diameter_mm,
+        "n_modes": 50,
+        "cases": all_cases,
+    }
+    manifest_path = output_dir / "suite_manifest.json"
+    with open(manifest_path, 'w') as f:
+        json.dump(manifest, f, indent=2)
+    print(f"Manifest: {manifest_path}")
+
+    return all_cases
+
+
+# ============================================================================
+# CLI
+# ============================================================================
+
+def parse_zernike_string(s: str) -> Dict[int, float]:
+    """Parse 'j1:amp1,j2:amp2,...' format."""
+    coeffs = {}
+    for pair in s.split(","):
+        parts = pair.strip().split(":")
+        if len(parts) != 2:
+            raise ValueError(f"Invalid format: '{pair}'. Use 'j:amplitude'")
+        j = int(parts[0])
+        amp = float(parts[1])
+        coeffs[j] = amp
+    return coeffs
+
+
+def main():
+    parser = argparse.ArgumentParser(
+        description="Generate synthetic WFE surfaces for Zernike validation",
+        formatter_class=argparse.RawDescriptionHelpFormatter,
+        epilog="""
+Examples:
+  # Pure astigmatism (100nm) on flat synthetic mesh
+  python generate_synthetic_wfe.py --zernike "5:100" -o test_astig.csv
+
+  # Realistic multi-mode
+  python generate_synthetic_wfe.py --preset realistic -o test_realistic.csv
+
+  # Inject into real M2 mesh
+  python generate_synthetic_wfe.py --inject m2_real.csv --zernike "5:100,7:50" -o test.csv
+
+  # Full suite using real mesh geometry
+  python generate_synthetic_wfe.py --suite --inject m2_real.csv -d validation_suite/
+
+  # Full suite with synthetic spherical mirror
+  python generate_synthetic_wfe.py --suite --surface sphere --roc 5000 -d validation_suite/
+        """
+    )
+
+    parser.add_argument("--zernike", "-z", type=str,
+                        help="Zernike coefficients as 'j:amp_nm,...'")
+    parser.add_argument("--preset", choices=["realistic"],
+                        help="Use preset coefficient set")
+    parser.add_argument("--suite", action="store_true",
+                        help="Generate full validation test suite")
+    parser.add_argument("--inject", type=str,
+                        help="Real FEA CSV to use as mesh source (keeps geometry, replaces displacements)")
+    parser.add_argument("--output", "-o", type=str, default="synthetic_wfe.csv",
+                        help="Output CSV file path")
+    parser.add_argument("--output-dir", "-d", type=str, default="validation_suite",
+                        help="Output directory for --suite mode")
+    parser.add_argument("--diameter", type=float, default=None,
+                        help="Mirror diameter in mm (auto-detected from mesh if not set)")
+    parser.add_argument("--inner-radius", type=float, default=0.0,
+                        help="Inner radius in mm for annular aperture")
+    parser.add_argument("--surface", choices=["flat", "sphere", "parabola"],
+                        default="flat", help="Surface type for synthetic mesh")
+    parser.add_argument("--roc", type=float, default=5000.0,
+                        help="Radius of curvature in mm (for sphere/parabola)")
+    parser.add_argument("--noise", type=float, default=0.0,
+                        help="Gaussian noise RMS in nm")
+    parser.add_argument("--lateral", action="store_true",
+                        help="Include small lateral DX/DY displacements")
+
+    args = parser.parse_args()
+
+    print("=" * 60)
+    print("Synthetic WFE Surface Generator")
+    print("Zernike Pipeline Validation — GigaBIT")
+    print("=" * 60)
+
+    if args.suite:
+        generate_test_suite(
+            args.output_dir,
+            inject_csv=args.inject,
+            diameter_mm=args.diameter,
+            inner_radius_mm=args.inner_radius,
+            surface_type=args.surface,
+            roc_mm=args.roc,
+        )
+    else:
+        # Determine coefficients
+        if args.preset == "realistic":
+            coeffs = PRESET_REALISTIC
+        elif args.zernike:
+            coeffs = parse_zernike_string(args.zernike)
+        else:
+            print("\nERROR: Specify --zernike, --preset, or --suite")
+            sys.exit(1)
+
+        # Get mesh
+        if args.inject:
+            x_m, y_m, z_m = load_real_mesh(args.inject)
+            diameter_mm = args.diameter
+        else:
+            diameter_mm = args.diameter or 1200.0
+            x_m, y_m, z_m = generate_mesh(
+                diameter_mm, args.inner_radius,
+                n_rings=25, surface_type=args.surface, roc_mm=args.roc
+            )
+
+        print(f"  Nodes: {len(x_m)}")
+        if diameter_mm:
+            print(f"  Diameter: {diameter_mm:.1f} mm")
+
+        print(f"\n  Coefficients:")
+        for j, amp in sorted(coeffs.items()):
+            print(f"    Z{j:2d} ({zernike_name(j):20s}): {amp:8.2f} nm")
+
+        dx, dy, dz, meta = synthesize_displacements(
+            x_m, y_m, coeffs, diameter_mm,
+            noise_rms_nm=args.noise,
+            include_lateral=args.lateral,
+        )
+
+        print(f"\n  RMS (clean):  {meta['rms_nm_clean']:.3f} nm")
+        if args.noise > 0:
+            print(f"  RMS (noisy):  {meta['rms_nm_with_noise']:.3f} nm")
+
+        write_csv_fea(args.output, x_m, y_m, z_m, dx, dy, dz)
+        meta_path = Path(args.output).with_suffix('.json')
+        write_metadata(str(meta_path), meta)
+
+    print("\nDone!")
+
+
+if __name__ == "__main__":
+    main()

tools/generate_validation_report.py

@@ -0,0 +1,448 @@
+#!/usr/bin/env python3
+"""
+Generate Zernike Validation Report Figures
+==========================================
+
+Creates publication-quality figures for the Zernike pipeline validation report.
+Outputs PNG figures to a specified directory.
+
+Author: Mario (Atomizer V&V)
+Created: 2026-03-09
+"""
+
+import sys
+import json
+import csv
+from pathlib import Path
+from math import factorial
+from typing import Dict, Tuple
+import numpy as np
+from numpy.linalg import lstsq
+import matplotlib
+matplotlib.use('Agg')
+import matplotlib.pyplot as plt
+import matplotlib.gridspec as gridspec
+from matplotlib.colors import TwoSlopeNorm
+
+# ============================================================================
+# Zernike Math
+# ============================================================================
+
+def noll_indices(j):
+    if j < 1:
+        raise ValueError
+    count, n = 0, 0
+    while True:
+        if n == 0:
+            ms = [0]
+        elif n % 2 == 0:
+            ms = [0] + [m for k in range(1, n // 2 + 1) for m in (-2 * k, 2 * k)]
+        else:
+            ms = [m for k in range(0, (n + 1) // 2) for m in (-(2 * k + 1), (2 * k + 1))]
+        for m in ms:
+            count += 1
+            if count == j:
+                return n, m
+        n += 1
+
+def zernike_radial(n, m, r):
+    R = np.zeros_like(r)
+    m_abs = abs(m)
+    for s in range((n - m_abs) // 2 + 1):
+        coef = ((-1)**s * factorial(n - s) /
+                (factorial(s) * factorial((n + m_abs)//2 - s) * factorial((n - m_abs)//2 - s)))
+        R += coef * r**(n - 2*s)
+    return R
+
+def zernike_noll(j, r, theta):
+    n, m = noll_indices(j)
+    R = zernike_radial(n, m, r)
+    if m == 0: return R
+    elif m > 0: return R * np.cos(m * theta)
+    else: return R * np.sin(-m * theta)
+
+def zernike_name(j):
+    n, m = noll_indices(j)
+    names = {
+        (0,0):"Piston",(1,-1):"Tilt X",(1,1):"Tilt Y",
+        (2,0):"Defocus",(2,-2):"Astig 45°",(2,2):"Astig 0°",
+        (3,-1):"Coma X",(3,1):"Coma Y",(3,-3):"Trefoil X",(3,3):"Trefoil Y",
+        (4,0):"Spherical",(4,-2):"2nd Astig X",(4,2):"2nd Astig Y",
+        (6,0):"2nd Sph",
+    }
+    return names.get((n, m), f"Z{j}")
+
+def fit_zernike(x_m, y_m, dz_m, diameter_mm=None, n_modes=50):
+    if diameter_mm is None:
+        diameter_mm = 2.0 * np.max(np.sqrt(x_m**2 + y_m**2) * 1000.0)
+    outer_r_m = diameter_mm / 2000.0
+    r_norm = np.sqrt(x_m**2 + y_m**2) / outer_r_m
+    theta = np.arctan2(y_m, x_m)
+    dz_nm = dz_m * 1e9
+    Z = np.zeros((len(x_m), n_modes))
+    for j in range(1, n_modes + 1):
+        Z[:, j-1] = zernike_noll(j, r_norm, theta)
+    coeffs, _, _, _ = lstsq(Z, dz_nm, rcond=None)
+    return coeffs
+
+def read_fea_csv(path):
+    x, y, z, dx, dy, dz = [], [], [], [], [], []
+    with open(path) as f:
+        reader = csv.DictReader(f)
+        for row in reader:
+            x.append(float(row['X'])); y.append(float(row['Y'])); z.append(float(row['Z']))
+            dx.append(float(row['DX'])); dy.append(float(row['DY'])); dz.append(float(row['DZ']))
+    return np.array(x), np.array(y), np.array(z), np.array(dx), np.array(dy), np.array(dz)
+
+# ============================================================================
+# Figure Generation
+# ============================================================================
+
+def fig_single_mode_bar_chart(suite_dir, output_dir):
+    """Bar chart showing input vs recovered for each single-mode test."""
+    single_modes = ["Z05_astig_0deg", "Z06_astig_45deg", "Z07_coma_x", "Z08_coma_y",
+                    "Z09_trefoil_x", "Z10_trefoil_y", "Z11_spherical", "Z22_2nd_spherical", "Z37_high_order"]
+
+    fig, ax = plt.subplots(figsize=(14, 6))
+
+    labels = []
+    input_vals = []
+    recovered_vals = []
+    errors = []
+
+    for name in single_modes:
+        csv_path = suite_dir / f"{name}.csv"
+        truth_path = suite_dir / f"{name}_truth.json"
+        if not csv_path.exists():
+            continue
+
+        x, y, z, dx, dy, dz = read_fea_csv(csv_path)
+        with open(truth_path) as f:
+            truth = json.load(f)
+
+        coeffs_in = {int(k): v for k, v in truth["input_coefficients"].items()}
+        recovered = fit_zernike(x, y, dz, truth.get("diameter_mm"))
+
+        for j, amp in coeffs_in.items():
+            labels.append(f"Z{j}\n{zernike_name(j)}")
+            input_vals.append(amp)
+            recovered_vals.append(recovered[j-1])
+            errors.append(abs(recovered[j-1] - amp))
+
+    x_pos = np.arange(len(labels))
+    width = 0.35
+
+    bars1 = ax.bar(x_pos - width/2, input_vals, width, label='Input (Truth)', color='#2196F3', alpha=0.9)
+    bars2 = ax.bar(x_pos + width/2, recovered_vals, width, label='Recovered', color='#FF9800', alpha=0.9)
+
+    ax.set_xlabel('Zernike Mode', fontsize=12)
+    ax.set_ylabel('Coefficient Amplitude (nm)', fontsize=12)
+    ax.set_title('Phase 1: Single-Mode Validation — Input vs Recovered\n(Real M2 Mesh, 357 nodes)', fontsize=14, fontweight='bold')
+    ax.set_xticks(x_pos)
+    ax.set_xticklabels(labels, fontsize=9)
+    ax.legend(fontsize=11)
+    ax.grid(axis='y', alpha=0.3)
+
+    # Add error annotations
+    for i, err in enumerate(errors):
+        ax.annotate(f'Δ={err:.1e}', (x_pos[i], max(input_vals[i], recovered_vals[i]) + 2),
+                   ha='center', fontsize=7, color='green')
+
+    plt.tight_layout()
+    fig.savefig(output_dir / "fig1_single_mode_validation.png", dpi=150, bbox_inches='tight')
+    plt.close()
+    print("  ✅ fig1_single_mode_validation.png")
+
+
+def fig_multi_mode_comparison(suite_dir, output_dir):
+    """Multi-mode realistic test: coefficient comparison."""
+    csv_path = suite_dir / "realistic_gravity.csv"
+    truth_path = suite_dir / "realistic_gravity_truth.json"
+
+    x, y, z, dx, dy, dz = read_fea_csv(csv_path)
+    with open(truth_path) as f:
+        truth = json.load(f)
+
+    coeffs_in = {int(k): v for k, v in truth["input_coefficients"].items()}
+    recovered = fit_zernike(x, y, dz, truth.get("diameter_mm"))
+
+    fig, (ax1, ax2) = plt.subplots(1, 2, figsize=(16, 6))
+
+    # Left: Bar chart of all 50 modes
+    modes = np.arange(1, 51)
+    input_arr = np.array([coeffs_in.get(j, 0.0) for j in modes])
+    recov_arr = np.array([recovered[j-1] for j in modes])
+
+    ax1.bar(modes - 0.2, input_arr, 0.4, label='Input', color='#2196F3', alpha=0.8)
+    ax1.bar(modes + 0.2, recov_arr, 0.4, label='Recovered', color='#FF9800', alpha=0.8)
+    ax1.set_xlabel('Noll Index j', fontsize=11)
+    ax1.set_ylabel('Amplitude (nm)', fontsize=11)
+    ax1.set_title('Multi-Mode Realistic Test\n(9 modes, gravity-like pattern)', fontsize=12, fontweight='bold')
+    ax1.legend()
+    ax1.grid(axis='y', alpha=0.3)
+
+    # Right: Error for each mode
+    error = np.abs(recov_arr - input_arr)
+    colors = ['#4CAF50' if e < 0.5 else '#F44336' for e in error]
+    ax2.bar(modes, error, color=colors, alpha=0.8)
+    ax2.axhline(y=0.5, color='red', linestyle='--', alpha=0.5, label='Tolerance (0.5 nm)')
+    ax2.set_xlabel('Noll Index j', fontsize=11)
+    ax2.set_ylabel('|Error| (nm)', fontsize=11)
+    ax2.set_title('Coefficient Recovery Error\n(all modes ≤ machine epsilon)', fontsize=12, fontweight='bold')
+    ax2.legend()
+    ax2.grid(axis='y', alpha=0.3)
+    ax2.set_yscale('symlog', linthresh=1e-15)
+    ax2.set_ylim(-1e-16, 1)
+
+    plt.tight_layout()
+    fig.savefig(output_dir / "fig2_multimode_validation.png", dpi=150, bbox_inches='tight')
+    plt.close()
+    print("  ✅ fig2_multimode_validation.png")
+
+
+def fig_noise_sensitivity(suite_dir, output_dir):
+    """Noise sensitivity analysis: error vs noise level."""
+    noise_levels = [0, 1, 5, 10]
+    names = ["realistic_gravity", "realistic_noise_1nm", "realistic_noise_5nm", "realistic_noise_10nm"]
+
+    active_modes = [5, 6, 7, 8, 9, 11, 13, 16, 22]
+    mode_labels = [f"Z{j}" for j in active_modes]
+
+    fig, (ax1, ax2) = plt.subplots(1, 2, figsize=(16, 6))
+
+    # Collect errors per noise level per mode
+    all_errors = {}
+    max_errors = []
+    rms_errors = []
+
+    for noise, name in zip(noise_levels, names):
+        csv_path = suite_dir / f"{name}.csv"
+        truth_path = suite_dir / f"{name}_truth.json"
+
+        x, y, z, dx, dy, dz = read_fea_csv(csv_path)
+        with open(truth_path) as f:
+            truth = json.load(f)
+
+        coeffs_in = {int(k): v for k, v in truth["input_coefficients"].items()}
+        recovered = fit_zernike(x, y, dz, truth.get("diameter_mm"))
+
+        mode_errors = []
+        for j in active_modes:
+            err = abs(recovered[j-1] - coeffs_in.get(j, 0.0))
+            mode_errors.append(err)
+
+        all_errors[noise] = mode_errors
+        # Max error across ALL 50 modes
+        full_err = [abs(recovered[j-1] - coeffs_in.get(j+1, 0.0)) for j in range(50)]
+        max_errors.append(max(full_err))
+        rms_errors.append(np.sqrt(np.mean(np.array(full_err)**2)))
+
+    # Left: Error per active mode at each noise level
+    x_pos = np.arange(len(active_modes))
+    width = 0.2
+    for i, noise in enumerate(noise_levels):
+        offset = (i - 1.5) * width
+        label = f"Noise={noise}nm" if noise > 0 else "Clean"
+        ax1.bar(x_pos + offset, all_errors[noise], width, label=label, alpha=0.85)
+
+    ax1.set_xlabel('Zernike Mode', fontsize=11)
+    ax1.set_ylabel('|Coefficient Error| (nm)', fontsize=11)
+    ax1.set_title('Noise Sensitivity: Active Mode Errors\n(357-node M2 mesh)', fontsize=12, fontweight='bold')
+    ax1.set_xticks(x_pos)
+    ax1.set_xticklabels(mode_labels)
+    ax1.legend()
+    ax1.grid(axis='y', alpha=0.3)
+
+    # Right: Max error vs noise level
+    ax2.plot(noise_levels, max_errors, 'o-', color='#F44336', linewidth=2, markersize=8, label='Max error (any mode)')
+    ax2.plot(noise_levels, rms_errors, 's-', color='#2196F3', linewidth=2, markersize=8, label='RMS error (all modes)')
+    ax2.axhline(y=0.5, color='gray', linestyle='--', alpha=0.5, label='Tolerance (0.5 nm)')
+    ax2.set_xlabel('Input Noise RMS (nm)', fontsize=11)
+    ax2.set_ylabel('Error (nm)', fontsize=11)
+    ax2.set_title('Error Growth vs Noise Level\n(357 nodes — sparse mesh amplifies noise)', fontsize=12, fontweight='bold')
+    ax2.legend()
+    ax2.grid(alpha=0.3)
+
+    plt.tight_layout()
+    fig.savefig(output_dir / "fig3_noise_sensitivity.png", dpi=150, bbox_inches='tight')
+    plt.close()
+    print("  ✅ fig3_noise_sensitivity.png")
+
+
+def fig_surface_maps(suite_dir, output_dir):
+    """2D surface maps showing input OPD, recovered, and residual."""
+    csv_path = suite_dir / "realistic_gravity.csv"
+    truth_path = suite_dir / "realistic_gravity_truth.json"
+
+    x, y, z, dx, dy, dz = read_fea_csv(csv_path)
+    with open(truth_path) as f:
+        truth = json.load(f)
+
+    diameter_mm = truth.get("diameter_mm")
+    coeffs_in = {int(k): v for k, v in truth["input_coefficients"].items()}
+    recovered = fit_zernike(x, y, dz, diameter_mm)
+
+    # Compute surfaces in nm
+    dz_nm = dz * 1e9
+
+    outer_r_m = diameter_mm / 2000.0
+    r_norm = np.sqrt(x**2 + y**2) / outer_r_m
+    theta = np.arctan2(y, x)
+
+    # Reconstructed surface
+    recon_nm = np.zeros_like(x)
+    for j in range(1, 51):
+        recon_nm += recovered[j-1] * zernike_noll(j, r_norm, theta)
+
+    residual_nm = dz_nm - recon_nm
+
+    fig, axes = plt.subplots(1, 3, figsize=(18, 5.5))
+
+    x_mm = x * 1000
+    y_mm = y * 1000
+
+    for ax, data, title, cmap in zip(
+        axes,
+        [dz_nm, recon_nm, residual_nm],
+        ['Input OPD (DZ)', 'Reconstructed (50 modes)', 'Residual'],
+        ['RdBu_r', 'RdBu_r', 'RdBu_r']
+    ):
+        vmax = max(abs(data.max()), abs(data.min())) if np.any(data != 0) else 1
+        if vmax < 1e-10:
+            vmax = 1e-10
+        norm = TwoSlopeNorm(vmin=-vmax, vcenter=0, vmax=vmax)
+        sc = ax.scatter(x_mm, y_mm, c=data, cmap=cmap, norm=norm, s=15, edgecolors='none')
+        ax.set_aspect('equal')
+        ax.set_xlabel('X (mm)')
+        ax.set_ylabel('Y (mm)')
+        ax.set_title(f'{title}\nRMS: {np.sqrt(np.mean(data**2)):.4f} nm')
+        plt.colorbar(sc, ax=ax, label='nm', shrink=0.8)
+
+    fig.suptitle('Phase 1: Realistic Multi-Mode Surface Validation\n(Real M2 Mesh, 357 nodes, 308mm diameter)',
+                 fontsize=13, fontweight='bold', y=1.02)
+    plt.tight_layout()
+    fig.savefig(output_dir / "fig4_surface_maps.png", dpi=150, bbox_inches='tight')
+    plt.close()
+    print("  ✅ fig4_surface_maps.png")
+
+
+def fig_mesh_visualization(suite_dir, output_dir):
+    """Show the real M2 mesh node distribution."""
+    csv_path = suite_dir / "realistic_gravity.csv"
+    x, y, z, dx, dy, dz = read_fea_csv(csv_path)
+
+    fig, (ax1, ax2) = plt.subplots(1, 2, figsize=(14, 6))
+
+    # Left: Node positions (XY plane)
+    x_mm = x * 1000
+    y_mm = y * 1000
+    ax1.scatter(x_mm, y_mm, c='#2196F3', s=8, alpha=0.7)
+    ax1.set_aspect('equal')
+    ax1.set_xlabel('X (mm)', fontsize=11)
+    ax1.set_ylabel('Y (mm)', fontsize=11)
+    ax1.set_title(f'M2 Mirror FEA Mesh — {len(x)} Nodes\n(Normand Fullum / Optiques Fullum)', fontsize=12, fontweight='bold')
+    ax1.grid(alpha=0.2)
+
+    # Add diameter annotation
+    r_mm = np.sqrt(x_mm**2 + y_mm**2)
+    circle = plt.Circle((0, 0), r_mm.max(), fill=False, color='red', linestyle='--', alpha=0.5)
+    ax1.add_patch(circle)
+    ax1.annotate(f'Ø {r_mm.max()*2:.0f} mm', (r_mm.max()*0.7, r_mm.max()*0.9), color='red', fontsize=10)
+
+    # Right: Surface profile (Z vs radius)
+    z_mm = z * 1000
+    ax2.scatter(r_mm, z_mm, c='#FF5722', s=8, alpha=0.7)
+    ax2.set_xlabel('Radial Distance (mm)', fontsize=11)
+    ax2.set_ylabel('Surface Height Z (mm)', fontsize=11)
+    ax2.set_title(f'Surface Profile — Sag: {z_mm.max()-z_mm.min():.2f} mm', fontsize=12, fontweight='bold')
+    ax2.grid(alpha=0.3)
+
+    plt.tight_layout()
+    fig.savefig(output_dir / "fig5_mesh_visualization.png", dpi=150, bbox_inches='tight')
+    plt.close()
+    print("  ✅ fig5_mesh_visualization.png")
+
+
+def fig_suite_summary(suite_dir, output_dir):
+    """Summary table-like figure showing all test results."""
+    manifest_path = suite_dir / "suite_manifest.json"
+    with open(manifest_path) as f:
+        manifest = json.load(f)
+
+    test_names = []
+    statuses = []
+    max_errors = []
+
+    for name, meta in sorted(manifest["cases"].items()):
+        csv_path = suite_dir / f"{name}.csv"
+        truth_path = suite_dir / f"{name}_truth.json"
+        if not csv_path.exists():
+            continue
+
+        x, y, z, dx, dy, dz = read_fea_csv(csv_path)
+        with open(truth_path) as f:
+            truth = json.load(f)
+
+        coeffs_in = {int(k): v for k, v in truth["input_coefficients"].items()}
+        recovered = fit_zernike(x, y, dz, truth.get("diameter_mm"))
+
+        max_err = 0
+        for j in range(1, 51):
+            err = abs(recovered[j-1] - coeffs_in.get(j, 0.0))
+            max_err = max(max_err, err)
+
+        test_names.append(name.replace("_", "\n"))
+        max_errors.append(max_err)
+        statuses.append("PASS" if max_err < 0.5 else "NOISE")
+
+    fig, ax = plt.subplots(figsize=(16, 6))
+
+    colors = ['#4CAF50' if s == "PASS" else '#FF9800' for s in statuses]
+    bars = ax.barh(range(len(test_names)), max_errors, color=colors, alpha=0.85)
+    ax.axvline(x=0.5, color='red', linestyle='--', alpha=0.6, label='Tolerance (0.5 nm)')
+    ax.set_yticks(range(len(test_names)))
+    ax.set_yticklabels(test_names, fontsize=8)
+    ax.set_xlabel('Max Coefficient Error (nm)', fontsize=11)
+    ax.set_title('Validation Suite Summary — All Test Cases\n(Green = PASS, Orange = Expected noise degradation)',
+                 fontsize=13, fontweight='bold')
+    ax.legend(fontsize=10)
+    ax.grid(axis='x', alpha=0.3)
+    ax.set_xscale('symlog', linthresh=1e-14)
+
+    # Add value labels
+    for i, (bar, err, status) in enumerate(zip(bars, max_errors, statuses)):
+        label = f"{err:.2e} nm — {status}"
+        ax.text(max(err, 1e-15) * 1.5, i, label, va='center', fontsize=8)
+
+    plt.tight_layout()
+    fig.savefig(output_dir / "fig6_suite_summary.png", dpi=150, bbox_inches='tight')
+    plt.close()
+    print("  ✅ fig6_suite_summary.png")
+
+
+# ============================================================================
+# Main
+# ============================================================================
+
+def main():
+    suite_dir = Path(sys.argv[1]) if len(sys.argv) > 1 else Path("tools/validation_suite")
+    output_dir = Path(sys.argv[2]) if len(sys.argv) > 2 else Path("tools/validation_report_figures")
+    output_dir.mkdir(parents=True, exist_ok=True)
+
+    print(f"Generating validation report figures...")
+    print(f"  Suite: {suite_dir}")
+    print(f"  Output: {output_dir}")
+    print()
+
+    fig_single_mode_bar_chart(suite_dir, output_dir)
+    fig_multi_mode_comparison(suite_dir, output_dir)
+    fig_noise_sensitivity(suite_dir, output_dir)
+    fig_surface_maps(suite_dir, output_dir)
+    fig_mesh_visualization(suite_dir, output_dir)
+    fig_suite_summary(suite_dir, output_dir)
+
+    print(f"\nAll figures generated in: {output_dir}")
+
+
+if __name__ == "__main__":
+    main()

tools/validate_zernike_roundtrip.py

@@ -0,0 +1,298 @@
+#!/usr/bin/env python3
+"""
+Zernike Round-Trip Validator
+=============================
+
+Reads a synthetic WFE CSV (FEA format: X,Y,Z,DX,DY,DZ) + its truth JSON,
+fits Zernike coefficients from DZ, and compares recovered vs input.
+
+This validates that the Zernike fitting math is correct by doing a
+generate → fit → compare round-trip.
+
+Usage:
+    # Single file
+    python validate_zernike_roundtrip.py validation_suite/Z05_astig_0deg.csv
+
+    # Full suite
+    python validate_zernike_roundtrip.py --suite validation_suite/
+
+Author: Mario (Atomizer V&V)
+Created: 2026-03-09
+"""
+
+import sys
+import csv
+import json
+import argparse
+from pathlib import Path
+from math import factorial
+from typing import Dict, Tuple
+import numpy as np
+from numpy.linalg import lstsq
+
+# ============================================================================
+# Zernike Math (same as generate_synthetic_wfe.py)
+# ============================================================================
+
+def noll_indices(j: int) -> Tuple[int, int]:
+    if j < 1:
+        raise ValueError("Noll index j must be >= 1")
+    count = 0
+    n = 0
+    while True:
+        if n == 0:
+            ms = [0]
+        elif n % 2 == 0:
+            ms = [0] + [m for k in range(1, n // 2 + 1) for m in (-2 * k, 2 * k)]
+        else:
+            ms = [m for k in range(0, (n + 1) // 2) for m in (-(2 * k + 1), (2 * k + 1))]
+        for m in ms:
+            count += 1
+            if count == j:
+                return n, m
+        n += 1
+
+
+def zernike_radial(n, m, r):
+    R = np.zeros_like(r)
+    m_abs = abs(m)
+    for s in range((n - m_abs) // 2 + 1):
+        coef = ((-1) ** s * factorial(n - s) /
+                (factorial(s) * factorial((n + m_abs) // 2 - s) * factorial((n - m_abs) // 2 - s)))
+        R += coef * r ** (n - 2 * s)
+    return R
+
+
+def zernike_noll(j, r, theta):
+    n, m = noll_indices(j)
+    R = zernike_radial(n, m, r)
+    if m == 0:
+        return R
+    elif m > 0:
+        return R * np.cos(m * theta)
+    else:
+        return R * np.sin(-m * theta)
+
+
+def zernike_name(j):
+    n, m = noll_indices(j)
+    names = {
+        (0, 0): "Piston", (1, -1): "Tilt X", (1, 1): "Tilt Y",
+        (2, 0): "Defocus", (2, -2): "Astig 45°", (2, 2): "Astig 0°",
+        (3, -1): "Coma X", (3, 1): "Coma Y",
+        (3, -3): "Trefoil X", (3, 3): "Trefoil Y",
+        (4, 0): "Spherical", (4, -2): "2ndAstig X", (4, 2): "2ndAstig Y",
+        (6, 0): "2nd Spherical",
+    }
+    return names.get((n, m), f"Z({n},{m:+d})")
+
+
+# ============================================================================
+# CSV Reading (FEA format)
+# ============================================================================
+
+def read_fea_csv(csv_path: str):
+    """
+    Read FEA-format CSV with columns: (index), X, Y, Z, DX, DY, DZ.
+    All values in meters.
+
+    Returns:
+        x_m, y_m, z_m, dx_m, dy_m, dz_m: arrays
+    """
+    x, y, z, dx, dy, dz = [], [], [], [], [], []
+    with open(csv_path) as f:
+        reader = csv.DictReader(f)
+        for row in reader:
+            x.append(float(row['X']))
+            y.append(float(row['Y']))
+            z.append(float(row['Z']))
+            dx.append(float(row['DX']))
+            dy.append(float(row['DY']))
+            dz.append(float(row['DZ']))
+    return (np.array(x), np.array(y), np.array(z),
+            np.array(dx), np.array(dy), np.array(dz))
+
+
+# ============================================================================
+# Zernike Fitting (Least Squares)
+# ============================================================================
+
+def fit_zernike(x_m, y_m, dz_m, diameter_mm=None, n_modes=50):
+    """
+    Fit Zernike coefficients to DZ displacement data.
+
+    Args:
+        x_m, y_m: Node positions in meters
+        dz_m: Z-displacement in meters
+        diameter_mm: Mirror diameter (auto-detected if None)
+        n_modes: Number of Zernike modes to fit
+
+    Returns:
+        coefficients_nm: array of shape (n_modes,), amplitudes in nm
+    """
+    if diameter_mm is None:
+        r_mm = np.sqrt(x_m**2 + y_m**2) * 1000.0
+        diameter_mm = 2.0 * np.max(r_mm)
+
+    outer_r_m = diameter_mm / 2000.0
+    r_norm = np.sqrt(x_m**2 + y_m**2) / outer_r_m
+    theta = np.arctan2(y_m, x_m)
+
+    # Convert DZ to nm
+    dz_nm = dz_m * 1e9
+
+    # Build Zernike basis matrix
+    Z = np.zeros((len(x_m), n_modes))
+    for j in range(1, n_modes + 1):
+        Z[:, j - 1] = zernike_noll(j, r_norm, theta)
+
+    # Least-squares fit
+    coeffs, residuals, rank, sv = lstsq(Z, dz_nm, rcond=None)
+
+    return coeffs
+
+
+# ============================================================================
+# Validation
+# ============================================================================
+
+def validate_file(csv_path: str, n_modes: int = 50, diameter_mm: float = None,
+                  tolerance_nm: float = 0.5, verbose: bool = True):
+    """
+    Validate a single synthetic WFE file.
+
+    Returns:
+        passed: bool
+        results: dict
+    """
+    csv_path = Path(csv_path)
+    truth_path = csv_path.with_name(csv_path.stem + "_truth.json")
+
+    if not truth_path.exists():
+        print(f"  WARNING: No truth file found for {csv_path.name}")
+        return None, None
+
+    # Load CSV (FEA format)
+    x_m, y_m, z_m, dx_m, dy_m, dz_m = read_fea_csv(csv_path)
+
+    # Load truth
+    with open(truth_path) as f:
+        truth = json.load(f)
+
+    input_coeffs = {int(k): v for k, v in truth["input_coefficients"].items()}
+
+    # Use diameter from truth if available
+    if diameter_mm is None:
+        diameter_mm = truth.get("diameter_mm")
+
+    # Fit Zernike from DZ
+    recovered = fit_zernike(x_m, y_m, dz_m, diameter_mm, n_modes)
+
+    # Compare
+    max_error = 0.0
+    results = {"modes": {}}
+    all_passed = True
+
+    if verbose:
+        print(f"\n  {'Mode':>6} {'Name':>20} {'Input(nm)':>10} {'Recovered(nm)':>14} {'Error(nm)':>10} {'Status':>8}")
+        print(f"  {'-'*6} {'-'*20} {'-'*10} {'-'*14} {'-'*10} {'-'*8}")
+
+    for j in range(1, n_modes + 1):
+        input_val = input_coeffs.get(j, 0.0)
+        recovered_val = recovered[j - 1]
+        error = abs(recovered_val - input_val)
+        max_error = max(max_error, error)
+
+        mode_passed = error < tolerance_nm
+        if not mode_passed:
+            all_passed = False
+
+        results["modes"][j] = {
+            "input": input_val,
+            "recovered": float(recovered_val),
+            "error": float(error),
+            "passed": mode_passed,
+        }
+
+        if verbose and (abs(input_val) > 0.01 or abs(recovered_val) > tolerance_nm):
+            status = "✅" if mode_passed else "❌"
+            print(f"  Z{j:>4d} {zernike_name(j):>20} {input_val:>10.3f} {recovered_val:>14.3f} {error:>10.6f} {status:>8}")
+
+    results["max_error_nm"] = float(max_error)
+    results["all_passed"] = all_passed
+    results["tolerance_nm"] = tolerance_nm
+    results["n_points"] = len(x_m)
+
+    if verbose:
+        print(f"\n  Max error: {max_error:.6f} nm")
+        print(f"  Tolerance: {tolerance_nm:.3f} nm")
+        print(f"  Result: {'✅ PASS' if all_passed else '❌ FAIL'}")
+
+    return all_passed, results
+
+
+def validate_suite(suite_dir: str, n_modes: int = 50, tolerance_nm: float = 0.5):
+    """Validate all test cases in a suite directory."""
+    suite_dir = Path(suite_dir)
+    csv_files = sorted(suite_dir.glob("*.csv"))
+
+    print(f"\nValidating {len(csv_files)} test cases in: {suite_dir}")
+    print("=" * 70)
+
+    summary = {}
+    n_pass = 0
+    n_fail = 0
+    n_skip = 0
+
+    for csv_file in csv_files:
+        print(f"\n{'─'*70}")
+        print(f"Test: {csv_file.name}")
+
+        passed, results = validate_file(csv_file, n_modes, tolerance_nm=tolerance_nm)
+
+        if passed is None:
+            n_skip += 1
+            summary[csv_file.stem] = "SKIP"
+        elif passed:
+            n_pass += 1
+            summary[csv_file.stem] = "PASS"
+        else:
+            n_fail += 1
+            summary[csv_file.stem] = "FAIL"
+
+    print(f"\n{'='*70}")
+    print(f"SUITE SUMMARY")
+    print(f"{'='*70}")
+    print(f"  PASS: {n_pass}")
+    print(f"  FAIL: {n_fail}")
+    print(f"  SKIP: {n_skip}")
+    print(f"  Total: {len(csv_files)}")
+    print(f"\n  Overall: {'✅ ALL PASSED' if n_fail == 0 else '❌ FAILURES DETECTED'}")
+
+    return n_fail == 0, summary
+
+
+def main():
+    parser = argparse.ArgumentParser(description="Validate Zernike round-trip accuracy")
+    parser.add_argument("input", nargs="?", help="CSV file or use --suite")
+    parser.add_argument("--suite", type=str, help="Validate all CSVs in directory")
+    parser.add_argument("--n-modes", type=int, default=50)
+    parser.add_argument("--tolerance", type=float, default=0.5,
+                        help="Max acceptable coefficient error in nm (default: 0.5)")
+    parser.add_argument("--diameter", type=float, default=None,
+                        help="Mirror diameter in mm (auto-detected if not set)")
+    args = parser.parse_args()
+
+    if args.suite:
+        passed, summary = validate_suite(args.suite, args.n_modes, args.tolerance)
+        sys.exit(0 if passed else 1)
+    elif args.input:
+        passed, results = validate_file(args.input, args.n_modes, args.diameter, args.tolerance)
+        sys.exit(0 if passed else 1)
+    else:
+        parser.print_help()
+        sys.exit(1)
+
+
+if __name__ == "__main__":
+    main()

tools/validation_suite/Z05_astig_0deg.csv

@@ -0,0 +1,358 @@
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tools/validation_suite/Z05_astig_0deg_truth.json

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+{
+  "input_coefficients": {
+    "5": 100.0
+  },
+  "coefficient_names": {
+    "5": "Astigmatism 45\u00b0"
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+  "include_lateral": false,
+  "seed": 42,
+  "units": {
+    "positions": "meters",
+    "displacements": "meters",
+    "coefficients": "nanometers"
+  }
+}

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tools/validation_suite/Z06_astig_45deg_truth.json

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+{
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+  "seed": 42,
+  "units": {
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+    "coefficients": "nanometers"
+  }
+}

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tools/validation_suite/Z07_coma_x_truth.json

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+{
+  "input_coefficients": {
+    "7": 100.0
+  },
+  "coefficient_names": {
+    "7": "Coma X"
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+  "rms_nm_with_noise": 36.296215855347604,
+  "noise_rms_nm": 0.0,
+  "include_lateral": false,
+  "seed": 42,
+  "units": {
+    "positions": "meters",
+    "displacements": "meters",
+    "coefficients": "nanometers"
+  }
+}

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tools/validation_suite/Z08_coma_y_truth.json

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+{
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+  "coefficient_names": {
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+  "seed": 42,
+  "units": {
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+    "displacements": "meters",
+    "coefficients": "nanometers"
+  }
+}

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tools/validation_suite/Z09_trefoil_x_truth.json

@@ -0,0 +1,20 @@
+{
+  "input_coefficients": {
+    "9": 100.0
+  },
+  "coefficient_names": {
+    "9": "Trefoil X"
+  },
+  "n_points": 357,
+  "diameter_mm": 308.4492626330409,
+  "rms_nm_clean": 36.78252785961855,
+  "rms_nm_with_noise": 36.78252785961855,
+  "noise_rms_nm": 0.0,
+  "include_lateral": false,
+  "seed": 42,
+  "units": {
+    "positions": "meters",
+    "displacements": "meters",
+    "coefficients": "nanometers"
+  }
+}

tools/validation_suite/Z10_trefoil_y.csv

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tools/validation_suite/Z10_trefoil_y_truth.json

@@ -0,0 +1,20 @@
+{
+  "input_coefficients": {
+    "10": 100.0
+  },
+  "coefficient_names": {
+    "10": "Trefoil Y"
+  },
+  "n_points": 357,
+  "diameter_mm": 308.4492626330409,
+  "rms_nm_clean": 36.78306790995374,
+  "rms_nm_with_noise": 36.78306790995374,
+  "noise_rms_nm": 0.0,
+  "include_lateral": false,
+  "seed": 42,
+  "units": {
+    "positions": "meters",
+    "displacements": "meters",
+    "coefficients": "nanometers"
+  }
+}

tools/validation_suite/Z11_spherical.csv

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tools/validation_suite/Z11_spherical_truth.json

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+{
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+  "seed": 42,
+  "units": {
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+    "coefficients": "nanometers"
+  }
+}

tools/validation_suite/Z22_2nd_spherical.csv

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tools/validation_suite/Z22_2nd_spherical_truth.json

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+{
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+}

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tools/validation_suite/Z37_high_order_truth.json

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+{
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+}

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tools/validation_suite/large_amplitude_truth.json

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+{
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+}

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tools/validation_suite/many_modes_truth.json

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tools/validation_suite/near_zero_truth.json

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tools/validation_suite/realistic_gravity_truth.json

@@ -0,0 +1,36 @@
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+  "seed": 42,
+  "units": {
+    "positions": "meters",
+    "displacements": "meters",
+    "coefficients": "nanometers"
+  }
+}