fix(memory): Wave 1 — SQL-aggregate dashboard counts + memory write-path fixes

Closes three live-affecting bugs surfaced by the 2026-04-29 Codex review,
all in the memory write/read path. Pre-deploy on Dalidou the live
discrepancy was dashboard.memories.active=315 vs integrity active=1091.

1. /admin/dashboard counts now SQL-aggregate (no sampling).
   New get_memory_count_summary() helper. Dashboard memories.{active,
   candidates,by_type,by_project,reinforced,by_status,total} all derive
   from full-table SQL, not a confidence-sorted limit=500 sample. Post
   deploy the dashboard active count must match the integrity panel.

2. PUT /memory/{id} accepts project; auto-triage now applies it.
   Added project to MemoryUpdateRequest and update_memory() with
   resolve_project_name canonicalization, before/after audit, and
   duplicate-active check scoped to the new project. scripts/auto_triage.py
   suggested-project correction now PUTs {"project": suggested} so
   misattribution flags actually retarget the memory.

3. POST /memory/{id}/invalidate uses direct id lookup.
   New get_memory(id) helper. Replaces the old
   _get_memories(status="active", limit=1) lookup, which only saw the
   highest-confidence active row. Active memories outside slot 0 no
   longer 404. Same status-guard structure applied to
   POST /memory/{id}/supersede so candidates can't silently flip to
   superseded.

14 regression tests added (572 -> 586 locally). Reviewed by Codex twice:
verdict GO on tip 9604c3e.

Co-Authored-By: Claude Opus 4.7 (1M context) <noreply@anthropic.com>

DEV-LEDGER.md

@@ -6,26 +6,26 @@
 
 ## Orientation
 
-- **live_sha** (Dalidou `/health` build_sha): `d3de9f6` (verified 2026-04-25T01:01Z post trusted-state ranking deploy; status=ok)
+- **live_sha** (Dalidou `/health` build_sha): `7042eae` (verified 2026-04-29T01:19Z; status=ok; deployed 2026-04-25T01:04Z, docs-only on top of `d3de9f6`)
-- **last_updated**: 2026-04-25 by Codex (retrieval harness fully green)
+- **last_updated**: 2026-04-29 by Claude (Wave 1 debt-pay branch open; Codex review of plan applied)
-- **main_tip**: `d3de9f6`
+- **main_tip**: `7042eae`
-- **test_count**: 572 on `main`
+- **test_count**: 586 on `claude/wave1-dashboard-counts-and-memory-fixes` (572 on main + 14 Wave 1 regressions; +5 from Codex review amends)
-- **harness**: `20/20 PASS` on live Dalidou, 0 blocking failures, 0 known issues
+- **harness**: `20/20 PASS` on live Dalidou, 0 blocking failures, 0 known issues (last harness run nightly 2026-04-28T03:00:30Z)
 - **vectors**: 33,253
-- **active_memories**: 290 (`/admin/dashboard` 2026-04-24; note integrity panel reports a separate active_memory_count=951 and needs reconciliation)
+- **active_memories**: 315 dashboard / 1091 integrity (verified live 2026-04-29). Discrepancy was a dashboard sampling bug — Wave 1 commit `fb4d55c` replaces it with SQL aggregates; post-deploy the two will agree.
-- **candidate_memories**: 0 (triage queue drained)
+- **candidate_memories**: 0 (queue drained, +103 captures since 2026-04-25)
-- **interactions**: 951 (`/admin/dashboard` 2026-04-24)
+- **interactions**: 1054 (claude-code 474, openclaw 576; verified `/admin/dashboard` 2026-04-29)
-- **registered_projects**: atocore, p04-gigabit, p05-interferometer, p06-polisher, atomizer-v2, abb-space (aliased p08)
+- **registered_projects**: atocore, p04-gigabit, p05-interferometer, p06-polisher, atomizer-v2, abb-space (aliased p08). **Auto-detected, unregistered**: apm (63 active memories), openclaw (9), lead-space (2), drill (1), optiques-fullum (1) — see Wave 1 follow-up below.
-- **project_state_entries**: 128 across registered projects (`/admin/dashboard` 2026-04-24)
+- **project_state_entries**: 128 across registered projects (verified 2026-04-29)
-- **entities**: 66 (up from 35 — V1-0 backfill + ongoing work; 0 open conflicts)
+- **entities**: 66 (V1-0 backfill complete; 0 open conflicts)
 - **off_host_backup**: `papa@192.168.86.39:/home/papa/atocore-backups/` via cron, verified
-- **nightly_pipeline**: backup → cleanup → rsync → OpenClaw import → vault refresh → extract → auto-triage → **auto-promote/expire (NEW)** → weekly synth/lint Sundays → **retrieval harness (NEW)** → **pipeline summary (NEW)**
+- **nightly_pipeline**: backup → cleanup → rsync → OpenClaw import → vault refresh → extract → auto-triage → auto-promote/expire → weekly synth/lint Sundays → retrieval harness → pipeline summary
 - **capture_clients**: claude-code (Stop hook + cwd project inference), openclaw (before_agent_start + llm_output plugin, verified live)
 - **wiki**: http://dalidou:8100/wiki (browse), /wiki/projects/{id}, /wiki/entities/{id}, /wiki/search
-- **dashboard**: http://dalidou:8100/admin/dashboard (now shows pipeline health, interaction totals by client, all registered projects)
+- **dashboard**: http://dalidou:8100/admin/dashboard
-- **active_track**: Engineering V1 Completion (started 2026-04-22). V1-0 landed (`2712c5d`). V1-A density gate CLEARED (784 active ≫ 100 target as of 2026-04-23). V1-A soak gate at day 5/~7 (F4 first run 2026-04-19; nightly clean 2026-04-19 through 2026-04-23; live harness is now fully green as of 2026-04-25). Plan: `docs/plans/engineering-v1-completion-plan.md`. Resume map: `docs/plans/v1-resume-state.md`.
+- **active_track**: Wave 1 debt-pay (this session) → V1-A start. V1-A gates have cleared (soak ended 2026-04-26; density 315 ≫ 100). Plan: `docs/plans/engineering-v1-completion-plan.md`. Resume map: `docs/plans/v1-resume-state.md`.
-- **last_nightly_pipeline**: `2026-04-23T03:00:20Z` — harness 17/18, triage promoted=3 rejected=7 human=0, dedup 7 clusters (1 tier1 + 6 tier2 auto-merged), graduation 30-skipped 0-graduated 0-errors, auto-triage drained the queue (0 new candidates 2026-04-22T00:52Z run)
+- **last_nightly_pipeline**: `2026-04-28T03:00:30Z` — harness 20/20, triage promoted=1 rejected=1 human=0
-- **open_branches**: `codex/p04-constraints-state-gap` pushed and fast-forwarded into `main` as `d3de9f6`; no active unmerged code branch for this tranche.
+- **open_branches**: `claude/wave1-dashboard-counts-and-memory-fixes` (tip `3a474f7`) — three memory-write-path bugs + two follow-on P2 fixes from Codex's formal audit (`auto_triage.py` PUT body + `/memory/{id}/supersede` status guard). Awaiting Codex re-review of the amended branch before squash-merge/deploy.
 
 ## Active Plan
 
@@ -170,6 +170,10 @@ One branch `codex/extractor-eval-loop` for Day 1-5, a second `codex/retrieval-ha
 
 ## Session Log
 
+- **2026-04-29 Codex + Claude (Wave 1 formal audit closed + amends)** Codex's formal audit of `fb4d55c` (Wave 1 first commit on `claude/wave1-dashboard-counts-and-memory-fixes`): verdict GO WITH CONDITIONS. Two P1-prior closures confirmed (dashboard count bug + invalidate top-1 lookup). Project-update P2 was only "partially closed" — API/service plumbing fine, but `scripts/auto_triage.py:417` still PUT `{"content": cand["content"]}` so the operational suggested-project correction was unreachable even with `MemoryUpdateRequest.project` in place. Codex also flagged the symmetric supersede-route gap as same-class adjacent surface and recommended pulling it in here, not in Wave 1.5. Plus one P3: cover retarget-to-empty-project against a global active duplicate. Amended on `3a474f7`: (1) auto_triage PUT body now `{"project": suggested}` with a guard test that lints the script source for the new shape; (2) `/memory/{id}/supersede` mirrors the invalidate guard via `get_memory(id)` — 404 unknown / 200 already_superseded / 409 wrong-status / 200 superseded; (3) regression test for project-empty duplicate detection. Test count 581 → 586. Codex's recommended deployment checklist (post-deploy verifications, including the run-or-simulate auto-triage retarget probe) carried into the merge plan. Awaiting Codex re-review of the amended tip before squash-merge.
+
+- **2026-04-29 Claude (Wave 1 debt-pay started; Codex review of state-of-service plan)** Audited live state on Dalidou: `/health` build_sha `7042eae` (4d old), harness 20/20, 33,253 vectors, 1,748 docs, 1054 interactions (+103/4d), dashboard memories.active=315 vs integrity.active_memory_count=1091. Drafted a state-of-service assessment + Wave 1/2/3/4 plan, then asked Codex (gpt-5.5) for an adversarial review via `codex exec`. Codex verdict: assessment MIXED, plan ENDORSE WITH CHANGES. Codex caught two factual corrections (the 315-vs-1091 gap is a *sampling bug* not a definitional gap; my "R9 drops unregistered tags" framing is wrong — `extractor_llm.py:213-233` preserves them) and two new memory-write-path bugs I missed. Branched `claude/wave1-dashboard-counts-and-memory-fixes` from `7042eae`, fixed all three: (1) `/admin/dashboard` now uses a new `get_memory_count_summary()` SQL aggregate helper instead of counting inside a confidence-sorted `get_memories(limit=500)` sample; (2) `MemoryUpdateRequest` and `update_memory()` accept `project` with `resolve_project_name` canonicalization + before/after audit, so `auto_triage.py:407` suggested-project corrections will now actually apply; (3) `POST /memory/{id}/invalidate` replaces the `_get_memories(status="active", limit=1)` lookup (which only saw the highest-confidence active row) with a direct id lookup via new `get_memory(id)` helper. 9 regression tests added across `test_memory.py` and `test_invalidate_supersede.py`. Full local suite: 581 passed (572 → 581). Commit `fb4d55c`. Branch not pushed/deployed yet — awaiting Codex audit per working model. Refreshed Orientation block (live_sha, last_updated, test_count, memory counts, capture cadence, registered/unregistered project breakdown, open_branches). Wave 1 follow-up still open: (W1.2) one-click registration proposal for unregistered projects with ≥10 active memories (apm=63 is overdue); (W1.3 done by this entry) sync ledger; (W1.4) committed measurable-win probe fixture+JSON output. After this branch lands, V1-A is unblocked: gates have effectively cleared (soak ended 2026-04-26; density 315 ≫ 100 target).
+
 - **2026-04-25 Codex (p04 constraint gap closed; harness fully green)** Root-caused the remaining `p04-constraints` fixture: the `Zerodur` / `1.2` fact already existed in Trusted Project State (`requirement/key_constraints`), but project-state formatting was category/key ordered and then truncated to the 20% state budget, so contacts/decisions consumed the budget before the relevant requirement. Added query-relevance ranking for Trusted Project State entries before formatting/truncation, with regression coverage in `test_project_state_query_relevance_before_truncation`. Removed the fixture's `known_issue` lane so future p04 constraint regressions are blocking. Cleaned up a duplicate live requirement entry created during diagnosis by invalidating `requirement/mirror-blank-core-constraints`; canonical `requirement/key_constraints` remains active. Verified focused suite: 35 passed. Verified full local suite: 572 passed. Deployed `d3de9f67eaa08dfc5b2d86e8221b8c70fef266d3`; live exact p04 probe now surfaces `[REQUIREMENT] key_constraints` with `1.2` and `Zerodur`. Live retrieval harness: 20/20, 0 known issues, 0 blocking failures.
 
 - **2026-04-25 Codex (project_id backfill + retrieval stabilization closed)** Merged `codex/project-id-metadata-retrieval` into `main` (`867a1ab`) and deployed to Dalidou. Took Chroma-inclusive backup `/srv/storage/atocore/backups/snapshots/20260424T154358Z`, then ran `scripts/backfill_chunk_project_ids.py` per project; populated projects `p04-gigabit`, `p05-interferometer`, `p06-polisher`, `atomizer-v2`, and `atocore` applied cleanly for 33,253 vectors total, with 0 missing/malformed and an immediate final dry-run showing 33,253 already tagged / 0 updates. Post-backfill harness exposed p06 memory-ranking misses (`Tailscale`, `encoder`), so Codex shipped `4744c69` then `a87d984 fix(memory): widen query-time context candidates`. Full local suite: 571 passed. Live `/health` reports `a87d9845a8c34395a02890f0cf22aa7a46afaf62`, vectors=33,253, sources_ready=true. Live retrieval harness: 19/20, 0 blocking failures, 1 known issue (`p04-constraints` missing `Zerodur` / `1.2`). A repeat backfill dry-run after the code-only stabilization deploy was aborted after the one-off container ran too long; the live service stayed healthy and the earlier post-apply idempotency result remains the migration acceptance record. Dalidou HTTP push credentials are still not configured; this session pushed through the Windows credential path.

scripts/auto_triage.py

@@ -404,19 +404,23 @@ def process_candidate(cand, base_url, active_cache, state_cache, known_projects,
         known_projects, TIER1_MODEL, DEFAULT_TIMEOUT_S,
     )
 
-    # Project misattribution fix: suggested_project surfaces from tier 1
+    # Project misattribution fix: suggested_project surfaces from tier 1.
+    # Earlier code POSTed only {"content": cand["content"]}, which left
+    # the project field unchanged because MemoryUpdateRequest had no
+    # project key and the service signature didn't accept one. Wave 1
+    # added project to MemoryUpdateRequest and update_memory(); this
+    # caller now actually applies the suggested project.
     suggested = (v1.get("suggested_project") or "").strip()
     if suggested and suggested != project and suggested in known_projects:
-        # Try to re-canonicalize the memory's project
         if not dry_run:
             try:
                 import urllib.request as _ur
                 req = _ur.Request(
                     f"{base_url}/memory/{mid}", method="PUT",
                     headers={"Content-Type": "application/json"},
-                    data=json.dumps({"content": cand["content"]}).encode("utf-8"),
+                    data=json.dumps({"project": suggested}).encode("utf-8"),
                 )
-                _ur.urlopen(req, timeout=10).read()  # triggers canonicalization via update
+                _ur.urlopen(req, timeout=10).read()
             except Exception:
                 pass
         print(f"    ↺ misattribution flagged: {project!r} → {suggested!r}")

src/atocore/api/routes.py

@@ -303,6 +303,7 @@ class MemoryUpdateRequest(BaseModel):
     memory_type: str | None = None
     domain_tags: list[str] | None = None
     valid_until: str | None = None
+    project: str | None = None
 
 
 class ProjectStateSetRequest(BaseModel):
@@ -636,6 +637,7 @@ def api_update_memory(memory_id: str, req: MemoryUpdateRequest) -> dict:
             memory_type=req.memory_type,
             domain_tags=req.domain_tags,
             valid_until=req.valid_until,
+            project=req.project,
         )
     except ValueError as e:
         raise HTTPException(status_code=400, detail=str(e))
@@ -794,33 +796,25 @@ def api_invalidate_memory(
     req: MemoryInvalidateRequest | None = None,
 ) -> dict:
     """Retract an active memory (Issue E — active → invalid)."""
-    from atocore.memory.service import get_memories as _get_memories, invalidate_memory
+    from atocore.memory.service import get_memory, invalidate_memory
 
     reason = req.reason if req else ""
-    # Quick existence/status check for a clean 404 vs 409.
+    # Direct id lookup — earlier code used get_memories(status='active', limit=1)
-    existing = [
+    # which only saw the highest-confidence active row, so any other active
-        m for m in _get_memories(status="active", limit=1)
+    # memory would 404 here even though it existed.
-        if m.id == memory_id
+    target = get_memory(memory_id)
-    ]
+    if target is None:
-    if not existing:
-        # Fall through to generic not-active if the id exists in another status.
-        all_match = [
-            m for m in _get_memories(status="candidate", limit=5000)
-            + _get_memories(status="invalid", limit=5000)
-            + _get_memories(status="superseded", limit=5000)
-            if m.id == memory_id
-        ]
-        if all_match:
-            if all_match[0].status == "invalid":
-                return {"status": "already_invalid", "id": memory_id}
-            raise HTTPException(
-                status_code=409,
-                detail=(
-                    f"Memory {memory_id} is {all_match[0].status}; "
-                    "use /reject for candidates"
-                ),
-            )
         raise HTTPException(status_code=404, detail=f"Memory not found: {memory_id}")
+    if target.status == "invalid":
+        return {"status": "already_invalid", "id": memory_id}
+    if target.status != "active":
+        raise HTTPException(
+            status_code=409,
+            detail=(
+                f"Memory {memory_id} is {target.status}; "
+                "use /reject for candidates"
+            ),
+        )
 
     success = invalidate_memory(memory_id, actor="api-http", reason=reason)
     if not success:
@@ -833,15 +827,33 @@ def api_supersede_memory(
     memory_id: str,
     req: MemorySupersedeRequest | None = None,
 ) -> dict:
-    """Supersede an active memory (Issue E — active → superseded)."""
+    """Supersede an active memory (Issue E — active → superseded).
-    from atocore.memory.service import supersede_memory
+
+    Mirrors the invalidate route's status guard: candidates and other
+    non-active rows must not silently flip to superseded.
+    """
+    from atocore.memory.service import get_memory, supersede_memory
 
     reason = req.reason if req else ""
+    target = get_memory(memory_id)
+    if target is None:
+        raise HTTPException(status_code=404, detail=f"Memory not found: {memory_id}")
+    if target.status == "superseded":
+        return {"status": "already_superseded", "id": memory_id}
+    if target.status != "active":
+        raise HTTPException(
+            status_code=409,
+            detail=(
+                f"Memory {memory_id} is {target.status}; "
+                "only active memories can be superseded"
+            ),
+        )
+
     success = supersede_memory(memory_id, actor="api-http", reason=reason)
     if not success:
         raise HTTPException(
-            status_code=404,
+            status_code=409,
-            detail=f"Memory not found or not active: {memory_id}",
+            detail=f"Memory {memory_id} could not be superseded",
         )
     return {"status": "superseded", "id": memory_id}
 
@@ -1280,16 +1292,20 @@ def api_dashboard() -> dict:
     health beyond the basic /health endpoint.
     """
     import json as _json
-    from collections import Counter
     from datetime import datetime as _dt, timezone as _tz
 
-    all_memories = get_memories(active_only=False, limit=500)
+    from atocore.memory.service import get_memory_count_summary
-    active = [m for m in all_memories if m.status == "active"]
-    candidates = [m for m in all_memories if m.status == "candidate"]
 
-    type_counts = dict(Counter(m.memory_type for m in active))
+    # SQL-backed counts. Earlier code derived these by sampling the top
-    project_counts = dict(Counter(m.project or "(none)" for m in active))
+    # 500 rows of get_memories() ordered by confidence — anything past
-    reinforced = [m for m in active if m.reference_count > 0]
+    # the cap was invisible, so /admin/dashboard silently undercounted
+    # active memories once the corpus crossed ~500 active rows.
+    counts = get_memory_count_summary()
+    active_total = counts["active"]["total"]
+    candidate_total = counts["by_status"].get("candidate", 0)
+    type_counts = counts["active"]["by_type"]
+    project_counts = counts["active"]["by_project"]
+    reinforced_total = counts["active"]["reinforced"]
 
     # Interaction stats — total + by_client from DB directly
     interaction_stats: dict = {"most_recent": None, "total": 0, "by_client": {}}
@@ -1402,13 +1418,13 @@ def api_dashboard() -> dict:
 
     # Triage queue health
     triage: dict = {
-        "pending": len(candidates),
+        "pending": candidate_total,
         "review_url": "/admin/triage",
     }
-    if len(candidates) > 50:
+    if candidate_total > 50:
-        triage["warning"] = f"High queue: {len(candidates)} candidates pending review."
+        triage["warning"] = f"High queue: {candidate_total} candidates pending review."
-    elif len(candidates) > 20:
+    elif candidate_total > 20:
-        triage["notice"] = f"{len(candidates)} candidates awaiting triage."
+        triage["notice"] = f"{candidate_total} candidates awaiting triage."
 
     # Recent audit activity (Phase 4 V1) — last 10 mutations for operator
     recent_audit: list[dict] = []
@@ -1420,11 +1436,13 @@ def api_dashboard() -> dict:
 
     return {
         "memories": {
-            "active": len(active),
+            "active": active_total,
-            "candidates": len(candidates),
+            "candidates": candidate_total,
             "by_type": type_counts,
             "by_project": project_counts,
-            "reinforced": len(reinforced),
+            "reinforced": reinforced_total,
+            "by_status": counts["by_status"],
+            "total": counts["total"],
         },
         "project_state": {
             "counts": ps_counts,

src/atocore/memory/service.py

@@ -347,6 +347,83 @@ def get_memories(
     return [_row_to_memory(r) for r in rows]
 
 
+def get_memory(memory_id: str) -> Memory | None:
+    """Return a single memory by id, or None if missing.
+
+    Direct id lookup (no LIMIT, no confidence ordering) — the right
+    primitive for routes that need to check a specific memory's status
+    before acting. Avoids the sampling pitfall where ``get_memories``
+    with a small ``limit`` could hide a target row sorted past the cap.
+    """
+    with get_connection() as conn:
+        row = conn.execute(
+            "SELECT * FROM memories WHERE id = ?", (memory_id,)
+        ).fetchone()
+    return _row_to_memory(row) if row else None
+
+
+def get_memory_count_summary() -> dict:
+    """Aggregate memory counts straight from SQL (no sampling).
+
+    Returned shape:
+        {
+            "total": int,                          # all rows
+            "by_status": {status: int, ...},       # full table
+            "active": {
+                "total": int,
+                "reinforced": int,                 # active with reference_count > 0
+                "by_type": {memory_type: int, ...},
+                "by_project": {project_or_none: int, ...},
+            },
+        }
+
+    Distinct from ``get_memories(...)``, which is a row-fetcher with a
+    confidence-sorted LIMIT and is therefore not safe for counting.
+    """
+    summary: dict = {
+        "total": 0,
+        "by_status": {},
+        "active": {
+            "total": 0,
+            "reinforced": 0,
+            "by_type": {},
+            "by_project": {},
+        },
+    }
+
+    with get_connection() as conn:
+        row = conn.execute("SELECT count(*) FROM memories").fetchone()
+        summary["total"] = row[0] if row else 0
+
+        rows = conn.execute(
+            "SELECT status, count(*) FROM memories GROUP BY status"
+        ).fetchall()
+        summary["by_status"] = {r[0]: r[1] for r in rows}
+
+        active_total = summary["by_status"].get("active", 0)
+        summary["active"]["total"] = active_total
+
+        rows = conn.execute(
+            "SELECT memory_type, count(*) FROM memories "
+            "WHERE status = 'active' GROUP BY memory_type"
+        ).fetchall()
+        summary["active"]["by_type"] = {r[0]: r[1] for r in rows}
+
+        rows = conn.execute(
+            "SELECT COALESCE(NULLIF(project, ''), '(none)') AS project, count(*) "
+            "FROM memories WHERE status = 'active' GROUP BY project"
+        ).fetchall()
+        summary["active"]["by_project"] = {r[0]: r[1] for r in rows}
+
+        row = conn.execute(
+            "SELECT count(*) FROM memories "
+            "WHERE status = 'active' AND reference_count > 0"
+        ).fetchone()
+        summary["active"]["reinforced"] = row[0] if row else 0
+
+    return summary
+
+
 def update_memory(
     memory_id: str,
     content: str | None = None,
@@ -355,6 +432,7 @@ def update_memory(
     memory_type: str | None = None,
     domain_tags: list[str] | None = None,
     valid_until: str | None = None,
+    project: str | None = None,
     actor: str = "api",
     note: str = "",
 ) -> bool:
@@ -368,6 +446,10 @@ def update_memory(
 
         next_content = content if content is not None else existing["content"]
         next_status = status if status is not None else existing["status"]
+        next_project = (
+            resolve_project_name(project) if project is not None
+            else (existing["project"] or "")
+        )
         if confidence is not None:
             _validate_confidence(confidence)
 
@@ -375,7 +457,7 @@ def update_memory(
             duplicate = conn.execute(
                 "SELECT id FROM memories "
                 "WHERE memory_type = ? AND content = ? AND project = ? AND status = 'active' AND id != ?",
-                (existing["memory_type"], next_content, existing["project"] or "", memory_id),
+                (existing["memory_type"], next_content, next_project, memory_id),
             ).fetchone()
             if duplicate:
                 raise ValueError("Update would create a duplicate active memory")
@@ -386,6 +468,7 @@ def update_memory(
             "status": existing["status"],
             "confidence": existing["confidence"],
             "memory_type": existing["memory_type"],
+            "project": existing["project"] or "",
         }
         after_snapshot = dict(before_snapshot)
 
@@ -422,6 +505,10 @@ def update_memory(
             updates.append("valid_until = ?")
             params.append(vu)
             after_snapshot["valid_until"] = vu or ""
+        if project is not None:
+            updates.append("project = ?")
+            params.append(next_project)
+            after_snapshot["project"] = next_project
 
         if not updates:
             return False

tests/test_invalidate_supersede.py

@@ -192,3 +192,120 @@ def test_v1_aliases_present(env):
         "/v1/memory/{memory_id}/supersede",
     ):
         assert p in paths, f"{p} missing"
+
+
+# ---------------------------------------------------------------------------
+# Wave 1 (2026-04-29) — invalidation route used to do
+# `_get_memories(status='active', limit=1)` and look for the target id
+# inside that single highest-confidence row, so any active memory
+# outside slot 0 fell through as 404. Direct id lookup fixes it.
+# ---------------------------------------------------------------------------
+
+
+def test_api_invalidate_finds_active_memory_outside_top_one(env):
+    """An active memory not at the top of the confidence sort must still
+    be invalidatable via POST /memory/{id}/invalidate."""
+    high = create_memory(
+        memory_type="knowledge",
+        content="high-confidence top row",
+        confidence=0.99,
+    )
+    low = create_memory(
+        memory_type="knowledge",
+        content="lower-confidence target",
+        confidence=0.55,
+    )
+    client = TestClient(app)
+    r = client.post(f"/memory/{low.id}/invalidate", json={"reason": "wave1 regression"})
+    assert r.status_code == 200, r.text
+    assert r.json()["status"] == "invalidated"
+    # And confirm the high-confidence row is untouched
+    assert _get_memory(high.id).status == "active"
+    assert _get_memory(low.id).status == "invalid"
+
+
+def test_api_invalidate_already_invalid_is_idempotent(env):
+    m = create_memory(memory_type="knowledge", content="already invalid")
+    client = TestClient(app)
+    r1 = client.post(f"/memory/{m.id}/invalidate", json={"reason": "first"})
+    assert r1.status_code == 200
+    r2 = client.post(f"/memory/{m.id}/invalidate", json={"reason": "again"})
+    assert r2.status_code == 200
+    assert r2.json()["status"] == "already_invalid"
+
+
+def test_api_invalidate_candidate_returns_409(env):
+    m = create_memory(
+        memory_type="knowledge", content="candidate route", status="candidate"
+    )
+    client = TestClient(app)
+    r = client.post(f"/memory/{m.id}/invalidate", json={"reason": "wrong route"})
+    assert r.status_code == 409
+
+
+def test_api_invalidate_unknown_id_is_404(env):
+    client = TestClient(app)
+    r = client.post("/memory/no-such-id/invalidate", json={"reason": "ghost"})
+    assert r.status_code == 404
+
+
+def test_api_supersede_candidate_returns_409(env):
+    """Mirror of the invalidate guard: candidates must not silently flip
+    to superseded via the active-only supersede route."""
+    m = create_memory(
+        memory_type="knowledge", content="candidate target", status="candidate"
+    )
+    client = TestClient(app)
+    r = client.post(f"/memory/{m.id}/supersede", json={"reason": "wrong route"})
+    assert r.status_code == 409
+    # Row should still be a candidate
+    assert _get_memory(m.id).status == "candidate"
+
+
+def test_api_supersede_already_superseded_is_idempotent(env):
+    m = create_memory(memory_type="knowledge", content="will be superseded")
+    client = TestClient(app)
+    r1 = client.post(f"/memory/{m.id}/supersede", json={"reason": "first"})
+    assert r1.status_code == 200
+    r2 = client.post(f"/memory/{m.id}/supersede", json={"reason": "again"})
+    assert r2.status_code == 200
+    assert r2.json()["status"] == "already_superseded"
+
+
+def test_api_supersede_unknown_id_is_404(env):
+    client = TestClient(app)
+    r = client.post("/memory/no-such-id/supersede", json={"reason": "ghost"})
+    assert r.status_code == 404
+
+
+def test_admin_dashboard_active_count_matches_full_table(env):
+    """/admin/dashboard memories.active must match the SQL aggregate even
+    when there are more active memories than the legacy sample limit (500).
+
+    This guards the Codex finding that the dashboard was deriving counts
+    from a confidence-sorted limit=500 fetch, hiding rows past the cap.
+    We don't need 500 rows in the test — a small corpus that exercises
+    the SQL-aggregate path is enough; the integrity-vs-dashboard equality
+    is the invariant being asserted.
+    """
+    # Mix of statuses to exercise the by_status aggregate
+    create_memory(memory_type="knowledge", content="a")
+    create_memory(memory_type="knowledge", content="b", project="p06-polisher")
+    create_memory(memory_type="project", content="c-cand", status="candidate")
+    cand = create_memory(memory_type="project", content="d-cand", status="candidate")
+    # Invalidate one to seed an "invalid" bucket
+    from atocore.memory.service import invalidate_memory
+    target_id = cand.id
+    # Promote it first via direct DB so invalidate does flip a candidate
+    # to invalid via the service path (mirrors actual API trajectory).
+    invalidate_memory(target_id)
+
+    client = TestClient(app)
+    dash = client.get("/admin/dashboard").json()
+    assert dash["memories"]["active"] == 2
+    assert dash["memories"]["candidates"] == 1
+    assert dash["memories"]["by_status"]["invalid"] == 1
+    assert dash["memories"]["total"] == 4
+    assert dash["memories"]["by_project"].get("p06-polisher") == 1
+    # "(none)" bucket is the COALESCE label for empty/null project
+    assert "(none)" in dash["memories"]["by_project"]

tests/test_memory.py

@@ -575,3 +575,121 @@ def test_expire_stale_candidates_keeps_reinforced(isolated_db):
     assert mid not in expired
     mem = _get_memory_by_id(mid)
     assert mem["status"] == "candidate"
+
+
+# ---------------------------------------------------------------------------
+# Wave 1 (2026-04-29) — counts come from SQL, not from the top-N sample.
+# Exposed by Codex audit when prod /admin/dashboard reported 315 active
+# while /admin/integrity-check reported 1091. The dashboard was building
+# its counts from a confidence-sorted limit=500 fetch.
+# ---------------------------------------------------------------------------
+
+
+def test_get_memory_count_summary_returns_full_table_aggregates(isolated_db):
+    """Counts come from SQL aggregates, not a sampled fetch."""
+    from atocore.memory.service import (
+        create_memory,
+        get_memory_count_summary,
+        invalidate_memory,
+    )
+
+    # Create more rows than any reasonable sampling LIMIT so any
+    # LIMIT-based counter would visibly disagree with reality.
+    for i in range(120):
+        create_memory(
+            "knowledge",
+            f"fact-{i}",
+            project="p04-gigabit",
+            confidence=0.9,
+            status="active",
+        )
+    for i in range(7):
+        create_memory("knowledge", f"cand-{i}", status="candidate")
+    invalid_obj = create_memory("knowledge", "to-invalidate", status="active")
+    invalidate_memory(invalid_obj.id)
+
+    summary = get_memory_count_summary()
+    assert summary["total"] == 120 + 7 + 1
+    assert summary["by_status"]["active"] == 120
+    assert summary["by_status"]["candidate"] == 7
+    assert summary["by_status"]["invalid"] == 1
+    assert summary["active"]["total"] == 120
+    assert summary["active"]["by_type"] == {"knowledge": 120}
+    assert summary["active"]["by_project"] == {"p04-gigabit": 120}
+
+
+def test_get_memory_returns_single_row_or_none(isolated_db):
+    from atocore.memory.service import create_memory, get_memory
+
+    mem = create_memory("knowledge", "single-row test")
+    fetched = get_memory(mem.id)
+    assert fetched is not None
+    assert fetched.id == mem.id
+    assert get_memory("non-existent-id") is None
+
+
+def test_update_memory_can_change_project_with_canonicalization(
+    isolated_db, project_registry
+):
+    """update_memory(project=...) canonicalizes aliases and writes audit."""
+    project_registry(("p04-gigabit", ("p04", "gigabit")))
+    from atocore.memory.service import (
+        create_memory,
+        get_memory,
+        get_memory_audit,
+        update_memory,
+    )
+
+    mem = create_memory("knowledge", "retargetable fact", project="atocore")
+    ok = update_memory(mem.id, project="p04")  # alias
+    assert ok is True
+
+    refreshed = get_memory(mem.id)
+    assert refreshed.project == "p04-gigabit"  # canonical, not "p04"
+
+    audit_rows = get_memory_audit(mem.id, limit=10)
+    update_rows = [r for r in audit_rows if r.get("action") == "updated"]
+    assert update_rows, f"expected an updated audit row, got {audit_rows}"
+    head = update_rows[0]
+    assert head["before"]["project"] == "atocore"
+    assert head["after"]["project"] == "p04-gigabit"
+
+
+def test_update_memory_project_unchanged_when_not_passed(isolated_db):
+    from atocore.memory.service import create_memory, get_memory, update_memory
+
+    mem = create_memory("knowledge", "untouched project", project="p06-polisher")
+    update_memory(mem.id, content="edited content")
+    assert get_memory(mem.id).project == "p06-polisher"
+
+
+def test_update_memory_to_empty_project_detects_global_duplicate(isolated_db):
+    """Codex P3: when retargeting to project='' (global), the duplicate
+    check must scope to the new project. If a global active memory with
+    the same content already exists, the update must raise."""
+    import pytest as _pytest
+    from atocore.memory.service import create_memory, update_memory
+
+    create_memory("knowledge", "shared global fact", project="")
+    scoped = create_memory("knowledge", "shared global fact", project="p04-gigabit")
+
+    with _pytest.raises(ValueError, match="duplicate active memory"):
+        update_memory(scoped.id, project="")
+
+
+def test_auto_triage_suggested_project_put_body_uses_project_key():
+    """Regression: the auto_triage caller used to PUT {"content": ...}
+    which silently dropped the suggested project change. The fix sends
+    {"project": suggested}. Inspect the script source so we don't have
+    to spin up a live triage run."""
+    from pathlib import Path
+
+    src = Path(__file__).resolve().parents[1] / "scripts" / "auto_triage.py"
+    text = src.read_text(encoding="utf-8")
+    # The block that PUTs to /memory/{mid} for a suggested_project fix
+    assert 'json.dumps({"project": suggested})' in text, (
+        "auto_triage.py must PUT {\"project\": suggested} so the "
+        "suggested-project correction actually applies. See Wave 1."
+    )
+    # And must not be back to the old shape
+    assert 'json.dumps({"content": cand["content"]})' not in text