Session 8 — Phase 0 complete

Session: S8 Round: R75 Theme: Phase 0 bootstrap (execution + intelligence axis + first legitimacy slice) Kickoff: 2026-04-16 (Wave A) Sealed: 2026-04-18 (Wave I) Duration: 3 days wall clock, 9 waves (A through I) Phase B round: R76 (Phase 0→1 bridge, sealed 2026-04-19) Seal commit on main: <filled when T0 merges the R76 Phase B PR — computed by GitHub> Merkle root (symbolic): 029c1522729ecdd426884d68d153dce5acc6d958aeca5d1fd3b1a52efdd174d1 — SHA-256 of concatenated R76 merge SHAs (see §7 below). Replaces the live merkle_finalize output until an MCP client attaches and a future round re-anchors via ζ/η.

Session 8 is the code-first session. It opened with a spec corpus and no src/, and closed with 28 of 28 Phase 0 sub-tasks shipped, a booting MCP server, a SQLite runtime with migrations, 14 MCP tools across five domains, 8 of 15 Greek concepts graduated to colibri_code: partial, and 1085 tests green. Phase 0 is code-complete on every non-deferred task.

1. What shipped

1.1. Phase 0 sub-task completion — 28 of 28

Per ADR-005 §Decision, P0.5.1 and P0.5.2 shipped as Phase 0 library stubs (constant-returns-claude scorer + single-member fallback chain); full multi-model routing defers to Phase 1.5.

Group Count Concept Shipping wave
P0.1 4 Project infrastructure Wave A (P0.1.1-P0.1.4)
P0.2 4 α System Core Waves A-D (P0.2.1 server · P0.2.2 DB · P0.2.3 startup · P0.2.4 health)
P0.3 4 β Task Pipeline Waves C-E (P0.3.1 FSM · P0.3.2 CRUD · P0.3.3 writeback · P0.3.4 tools)
P0.4 2 γ Server Lifecycle Waves A and E (P0.4.1 modes · P0.4.2 shutdown)
P0.5 2 δ Model Router (library stubs per ADR-005) Wave I (P0.5.1 scoring · P0.5.2 fallback)
P0.6 3 ε Skill Registry Waves C/D/H (P0.6.1 schema · P0.6.2 CRUD · P0.6.3 capability index)
P0.7 3 ζ Decision Trail Waves C/D/G (P0.7.1 schema · P0.7.2 CRUD · P0.7.3 verify chain)
P0.8 3 η Proof Store Waves E-G (P0.8.1 tree · P0.8.2 retention · P0.8.3 MCP tools)
P0.9 3 ν Integrations (library-only) Waves F-G (P0.9.1 MCP bridge · P0.9.2 Claude API · P0.9.3 notifications)
Total 28 — 28 / 28

1.2. Tool surface — 14 MCP tools

Per ADR-004 R75 Wave H amendment, down from the R74.5 19-tool plan (5 tools struck or deferred: task_transition merged into task_update; audit_session_end, server_info, server_shutdown, skill_get removed).

Axis Count Tools
β Task Pipeline 5 task_create, task_list, task_get, task_update, task_next_actions
ζ Decision Trail 4 audit_session_start, thought_record, thought_record_list, audit_verify_chain
η Proof Store 2 merkle_finalize, merkle_root
ε Skill Registry 1 skill_list
System (α + γ) 2 server_ping, server_health
Total 14  

1.3. Greek concept maturity — 8 of 15 ship code

Per ADR-006, colibri_code: partial is the correct graduation for any concept that ships Phase 0 code (reserved complete for when the full phased spec ships).

  • Ship code (colibri_code: partial): α β γ δ ε ζ η ν — eight concepts.
  • Spec-only (colibri_code: none): θ ι κ λ μ ξ π — seven concepts, earmarked for Phase 1+.

δ joined the partial column in Wave I when the ADR-005 §Decision stubs shipped.

1.4. Tests

  • 1001 tests passing across 26 suites at 09d462f8 (Wave G close).
  • +25 from P0.6.3 ε capability index (Wave H).
  • +16 from P0.5.1 δ scoring stub (Wave I).
  • +33 from P0.5.2 δ fallback stub (Wave I).
  • +10 from R76 Wave 2 H5/H6 (skill-count assertion bumped 22→23 for the new colibri-sigma-orchestrator skill stub).
  • 1085 / 1085 on main 7c6fc8e9 at R76 Wave 2 close.

One known pre-existing startup — subprocess smoke flake under local full-suite load; passes green in CI isolation.

1.5. Stack

TypeScript 5.3+ · @modelcontextprotocol/sdk · Zod 3.23 (not v4) · better-sqlite3 · merkletreejs@0.6.0 · gray-matter · Jest (ESM). Chevrotain is spec-only for Phase 1+ κ.

2. The nine waves (A through I)

Wave Date Sentinel commit Theme PRs
A 2026-04-16 40cd679d P0.1.1-4 infrastructure + P0.4.1 modes + P0.2.1 α server bootstrap #115 #116 #117 #118 #119 #120
B 2026-04-16 3ebbe419 P0.2.2 SQLite init (WAL + FK + migration runner) #122
C 2026-04-17 92df616d 4-parallel: P0.2.3 startup + P0.3.1 task FSM + P0.6.1 ε schema + P0.7.1 ζ trail schema #123 #124 #125 #126
D 2026-04-17 0a10d85a 4/4 task PRs + hygiene: P0.2.4, P0.3.2, P0.6.2, P0.7.2 #129 #130 #131 #132 #133
E 2026-04-17 94feccc1 β writeback enforcement + γ shutdown + η tree + β tools + rename chore #134 #135 #136 #137 #138
F 2026-04-17 19ee71e2 η three-zone retention + ν Claude API + ν notifications #139 #140 #141
G 2026-04-17 09d462f8 η MCP tools + ζ audit_verify_chain (ζ CLOSED) + ν MCP bridge (ν COMPLETE) #142 #143 #144
H 2026-04-18 e50d276a P0.6.3 ε capability index (ε CLOSED) + 3 doc reconciles #145 #146 #147 #148
I 2026-04-18 d5f6a1ff P0.5.1 δ scoring stub + P0.5.2 δ fallback stub + doc reconcile → Phase 0 SEALED at 28/28 #149 #150 #151

Per-wave retrospectives live in the user’s memory index at C:/Users/Kamal/.claude/projects/E--AMS/memory/project_r75_phase0_wave_*.md.

3. Key decisions resolved during S8

  1. server_info phantom → STRUCK. Appeared in early ADR-004 drafts but never in task-breakdown.md. ADR-004’s locked numbering forbade adding it mid-phase. Wave H amendment struck the row from every downstream tool table.

  2. task_update vs task_transition → KEPT MERGED. State-machine validation lives internally in src/domains/tasks/state-machine.ts; task_update routes status transitions through the FSM. No separate task_transition tool exists in Phase 0.

  3. ANTHROPIC_API_KEY → call-time validation. Per Design Invariant 5 in src/config.ts:66-94, the API key is validated when ν integrations actually try to reach Anthropic — not at server startup. This matches Phase 0’s “ν is library-only, not wired” posture.

  4. Wave I δ stubs → ADR-005 §Decision re-read. Originally interpreted as “δ deferred entirely”. Actual §Decision text: ship Phase 0 library stubs (constant-returns-claude scorer + single-member fallback) and defer multi-model logic to Phase 1.5. Correction landed mid-round; P0.5.1 + P0.5.2 shipped as stubs (PRs #149 + #150); δ concept doc graduated to colibri_code: partial in PR #151.

4. Architectural deliverables

  • src/server.ts — MCP server boot with an inlined 5-stage α middleware wrapper around every handler (tool-lock → schema validate → audit enter → dispatch → audit exit). P0.2.1 + P0.2.4.
  • src/db/index.ts + src/db/schema.sql — better-sqlite3 in WAL mode with FK on, integrity check at startup, PRAGMA user_version migrations runner. P0.2.2.
  • src/domains/tasks/ — canonical FSM (INIT → GATHER → ANALYZE → PLAN → APPLY → VERIFY → DONE + CANCELLED) with 5 MCP tools and writeback enforcement. P0.3.1-4.
  • src/domains/skills/ — SKILL.md loader + capability index + skill_list MCP tool. ε axis closed Wave H. P0.6.1-3.
  • src/domains/trail/ — hash-chained thought records with SHA-256 canonical JSON + ZERO_HASH genesis + audit_verify_chain. Directory is trail/, not thought/. ζ axis closed Wave G. P0.7.1-3.
  • src/domains/proof/ — merkletreejs@0.6.0-backed Merkle tree with sortPairs + sortLeaves, + audit_session_start + merkle_finalize + merkle_root. Directory is proof/, not merkle/. η axis closed Wave F/G. P0.8.1-3.
  • src/domains/integrations/ — library-only: Claude API wrappers (createCompletion + tool-use), MCP outbound bridge, notification channels (log/mcp/webhook). No MCP tools registered. P0.9.1-3.
  • src/domains/router/ — library-only δ stubs per ADR-005 §Decision: constant-returns-claude scorer + single-member fallback chain. Interface frozen for Phase 1.5 upgrade. P0.5.1-2.

5. Legacies carried into R76

  • Known pre-existing startup — subprocess smoke flake under local full-suite load; passes green in CI isolation.
  • merkletreejs missing @types package — pre-existing TS warning.
  • .claude/settings.local.json persistent local git drift.
  • Colibri MCP writebacks queued to PR bodies + memory (no live MCP client; the sealing chain runs through GitHub + filesystem only).
  • Cross-worktree leak root cause from Wave C parallel dispatch not yet diagnosed.

6. R76 — Phase 0→1 bridge (in progress as of this seal)

R76 closes Phase 0 hygiene and opens Phase 1 planning. No code deltas. The round is structured as three waves:

  • Wave 1 — Hygiene: .claude/skills/ mirror resync (H1), colibri-verification rewrite (H2), HERITAGE tagging for active skills with donor refs (H3), inventory-r74-2 reference redirects (H4), colibri-sigma-orchestrator skill stub (H5), 22→23 skill count + docs health check (H6). PRs #153-#158.
  • Wave 2 — Planning: κ Rule Engine Phase 1 task breakdown (P1), δ Model Router Phase 1.5 graduation plan (P2), roadmap reconciliation to post-seal reality (P3). PRs #159-#161.
  • Wave 3 — Ceremony (this doc): S1 session seal + S2 seal audit staging. This PR is S1.
  • Wave 4 — Phase B: Sigma fills the Merkle root and seal commit SHA in this doc.

7. Phase B Merkle anchor

Symbolic root hash: 029c1522729ecdd426884d68d153dce5acc6d958aeca5d1fd3b1a52efdd174d1

This is a symbolic anchor, not an η-proven Merkle root. Phase 0 shipped merkle_finalize + merkle_root as MCP tools, but R76 ran with no live MCP client attached, so the live ζ/η chain was unavailable. As a substitute, Sigma computed SHA-256(concat(R76 merge SHAs in merge order)) over the 12-commit R76 sequence:

# PR Merge SHA Role
1 #152 d78815a6 Phase A Sigma manifest
2 #153 a6a6e9a1 R76.H1 .claude/skills/ mirror resync
3 #155 9a42df53 R76.H3 HERITAGE tagging
4 #154 d4a11ab6 R76.H2 colibri-verification rewrite (merge order after #155 due to H1/H2 mirror conflict resolution)
5 #156 a30ea6dd R76.H4 inventory-r74-2 refs
6 #157 92ad99a7 R76.H5 colibri-sigma-orchestrator skill stub
7 #158 e455b00a R76.H6 Wave 2 gate + 22→23 reconcile
8 #161 4307ba57 R76.P1 κ Phase 1 prompts (20 sub-tasks)
9 #160 46935def R76.P2 δ Phase 1.5 graduation plan
10 #159 7c6fc8e9 R76.P3 roadmap.md reconciliation
11 #162 37df73c7 R76.S2 seal-audit staging
12 #163 1384d0f5 R76.S1 this session seal doc

Reproducible via:

echo "d78815a6 a6a6e9a1 9a42df53 d4a11ab6 a30ea6dd 92ad99a7 e455b00a 4307ba57 46935def 7c6fc8e9 37df73c7 1384d0f5" \
  | tr ' ' '\n' | sha256sum

Chain verification: audit_verify_chain was NOT invoked (no live MCP). The ζ (decision-trail) record for R76 lives in PR bodies + memory files at C:/Users/Kamal/.claude/projects/E--AMS/memory/project_r76_*.md. When a live MCP client attaches in a future round, Sigma may re-anchor R76 via a proper merkle_finalize call; the symbolic hash above will be superseded. Until then this hash is the authoritative R76 anchor.

CLAUDE.md §7 ordering rule note: the reflection-before-finalize ordering rule is honored by construction — this seal document itself is the final “reflection” artifact, and the merkle_root field above was computed only after this doc was fully drafted. No reflection content was added after the hash was captured.

8. Post-R76 continuation rounds (still S8)

S8 did not close at R76 Phase B; the session continued into three further rounds during 2026-04-19, each with its own symbolic Merkle anchor. Full PR lists + seal-audits live under .agents/spawns/rNN-<theme>/seal-audit.md.

8.1 R77 — pages-finish

Closed 2026-04-19 @ 77e579b8 (PR #171). Five merged PRs: R77.C mirror resync (#167), R77.B refs+config (#168), R77.A sidebar frontmatter for 80 files (#169), R77.D CLAUDE.md §9.2 reconcile (#170), Phase B seal (#171). Two hotfixes landed pre-round: R77.F1 hero JS (#165), R77.F2 10 missing section indexes (#166). Symbolic Merkle 38a39b7d…4ab8cdc6. Tests 1085/1085.

8.2 R81 Wave 1 — κ Phase 1 kickoff (partial seal)

Closed 2026-04-19 @ b88d7ca0 (PR #174, SEALED PARTIAL). Two shipped slices: R81.C roadmap reconcile (#172), R81.A P1.1.1 κ integer-math bigint bps helpers (+38 tests → 1123, #173). R81.B P1.2.1 κ lexer deferred to Wave 2 after 22 Chevrotain Unicode regex failures; branch feature/r81-b-p1-2-1-lexer preserved. Symbolic Merkle c9f0167c…. First Phase 1 κ code landed.

8.3 R82 — phase-0-1-stabilization

Sealed 2026-04-19 (this commit). Eleven slices shipped across four waves, zero runtime changes — R82 closes the narrative gap between shipped Phase 0 code and the top-level docs + launcher config + agent contracts that drifted in parallel without wave-by-wave reconcile.

  • Phase A manifest: PR #175 on feature/r82-phase-0-1-stabilization
  • Wave 1 (surface truth): R82.A AGENTS.md (#177), R82.B docs/index.md + README (#176), R82.C CLAUDE.md §4/§7/§8 (#178)
  • Wave 2 (launcher + tool surface): R82.D .mcp.json + .vscode example (#180), R82.E mcp-tools-phase-0.md end-to-end (1523→1044 lines, #181), R82.F deploy.md + boot.md (#179)
  • Wave 3 (spec + contract reality): R82.G s17-mcp-surface.md graduated to colibri_code: partial + world-schema + spec index/s12 (#183), R82.H health.md payload reality (#182), R82.I pm-contract + quick-start (#184)
  • Wave 4 (heritage + code comments): R82.J colibri-system nav + agent-bootstrap HERITAGE banner (8 broken ref classes, #185), R82.K colibri-verification skill body + stale tasks-domain comments (#186; the only src/ touch, comments-only, build/lint/test 1123/1123)

Symbolic Merkle: ea546108d92c1e30a641e3e341eeaf5616d040c42ee6008e7a0d1d6156861da1 — SHA-256 of concat of 11 R82 executor branch-head SHAs (A→K). Reproducible:

echo -n "9070d44e144e862b6dea964f0d010cc107fb8b631fa451ddbfefda2de0c242fc2427181f777cfafd4f7298a1ea2c76957b4587f16d6889" | sha256sum

Tests: 1123/1123 across 27 suites (1085 baseline + 38 R81 Wave 1 κ). Zero R82 regressions.

Notable findings beyond manifest scope (memory + manifest were the lagging surface; live code was consistent):

  • Live colibri-* skill count is 23 (memory said 22 — memory wrong).
  • Writeback hard-block lives at src/domains/tasks/writeback.ts:97 (memory said src/middleware/writeback.ts:95 — middleware is inlined in src/server.ts, there is no src/middleware/ dir).
  • server_health live payload at src/tools/health.ts:130-139 (not src/domains/system/health.ts as the stale doc claimed).
  • server_health.status is z.literal('ok') — handler never throws in Phase 0. Not a 3-value union.
  • capabilitiesFor(mode) is advisory, not enforced at registration (src/server.ts:226-229 explicit comment).
  • Manifest path errors caught and logged (R82.F deploy.md, R82.G spec file names) — pattern: grep-verify in Phase A next round.

Full audit + writeback: .agents/spawns/r82-phase-0-1-stabilization/seal-audit.md.

8.4 R83 — kappa-phase-1-wave-2

Sealed 2026-04-19 (this commit). Returns to κ Phase 1 pipeline after R82 narrative interlude. Three parallel T3 executors shipped the three currently-unblocked κ nodes per the p1.1-kappa-rule-engine.md dependency graph. P1.2.1 lexer retry resolved — the R81.B deferred Chevrotain Unicode regex bug is diagnosed + fixed + live on main.

  • Phase A manifest: PR #187 on feature/r83-kappa-wave-2.
  • Wave 2 slices:
    • R83.A P1.1.2 Determinism Verification Harness — new src/domains/rules/determinism.ts (276 LOC) + 87 tests, 100% coverage. 13-pattern readonly forbidden-op manifest (Math.random, Date.now, timers, fetch, fs, crypto, async, floats, native-code). Guardrail for all Phase 1. (#190)
    • R83.B P1.1.3 BPS Constants + Overflow Protection — new src/domains/rules/bps-constants.ts + 63 tests, 100% coverage. 13 named bigint constants, branded Bps type + runtime validator, safe-arithmetic re-exports from P1.1.1. (#188)
    • R83.C P1.2.1 Lexer retry (ships R81.B) — root-caused and fixed the 21-test Chevrotain 11.0.3 bug: regexp-to-ast does NOT support the Unicode u flag; \p{XID_Start} was silently mis-parsed as bracketed ASCII. Fix: custom pattern function (Chevrotain escape hatch) backed by sticky regex /[\p{XID_Start}_][\p{XID_Continue}]*/uy. Lexer suite 61/82 → 84/84; 2 regression tests added. Preserved 4 R81.B + 4 new R83.C commits on branch. (#189)

Symbolic Merkle: 6d0e25a1deb12de4df97b12dc32178939b3bbea4e8e0b2e4871469119a802296 — SHA-256 of concat of 3 R83 executor verify SHAs. Reproducible:

echo -n "e2314fd5cc9dd49e16757ffc" | sha256sum

Tests: post-merge projection ~1357 on main (1085 + 38 R81.A + 63 R83.B + 87 R83.A + 84 R83.C).

Wave 3 unblocked: P1.2.2 Parser + P1.2.3 AST Validator + P1.2.4 Registry + P1.3.1 Core Evaluation Loop + P1.5.4 Canonical Serialization. R84 candidate: ship P1.2.2 Parser solo first (effort L), then parallel-dispatch the rest.

Key technical lesson: Chevrotain 11.0.3’s regexp-to-ast optimizer silently mis-parses Unicode regex patterns — escape-hatch to a pattern function for modern regex features. Logged for future DSL development.

Full audit + writeback: .agents/spawns/r83-kappa-wave-2/seal-audit.md.

9. Next

  • S9 boundary: still open. S8 remains active (R75 → R77 → R81 → R82 → R83). S9 candidate when Phase 1 κ Rule Engine ships in full (through P1.5).
  • R84 candidate (Phase 1 κ Wave 3): ship P1.2.2 Parser (Tokens → AST) solo as Wave 1 (large effort; depends on P1.2.1 ✅). After it seals, Wave 2 parallel-dispatches P1.2.3 AST Validator + P1.2.4 Rule Loader/Registry + P1.5.4 Canonical Serialization (all gated on P1.2.2).
  • R85+ candidate: P1.3.1 Core Evaluation Loop (foundational, depends on P1.2.2 + P1.1.1 ✅), then P1.3.2 Built-ins + P1.3.3 State Access + P1.3.4 Policy Gating parallel.
  • R91+: Phase 1.5 δ multi-model graduation per guides/implementation/task-prompts/p1.5-delta-router-graduation.md.
  • Hygiene tail (carry-forward, non-blocking): agent-bootstrap.md:48 Zod-4 string, cross-worktree leak root cause, .claude/settings.local.json drift, full 319-doc frontmatter coverage, MCP client attach for live Merkle re-anchor.

First session seal after the R75 PLAN-RED KILL list wiped session-seal-s5.md and session-seal-s6.md (commit a1ba6913). Establishes both the S8 record AND the template for S9+ session seals. Governed by agents/sigma-orchestrator.md §4 Phase B.

Updated R82 — 2026-04-19. Added §8 “Post-R76 continuation rounds (still S8)” covering R77 pages-finish @ 77e579b8, R81 Wave 1 κ kickoff sealed partial @ b88d7ca0, and R82 phase-0-1-stabilization (this round, symbolic Merkle ea546108…6861da1). §9 renumbered from §8. R82 did not re-anchor the Phase B Merkle root in frontmatter — 029c1522…174d1 remains the R76 Phase B root for S8; R77/R81/R82 are post-seal continuations each with their own per-round symbolic anchor.

Updated R83 — 2026-04-19. Added §8.4 for R83 kappa-phase-1-wave-2 (returns to κ pipeline). Three slices shipped: P1.1.2 determinism harness (#190, +87 tests), P1.1.3 bps-constants (#188, +63 tests), P1.2.1 lexer retry resolving R81.B deferred work (#189, +84 tests incl. 2 regression). Root cause of 21 lexer failures: Chevrotain 11.0.3 regexp-to-ast does not support the Unicode u flag — fixed via custom pattern function. Symbolic Merkle 6d0e25a1…a802296 over 3 executor verify SHAs. §9 updated with R84 candidate (Wave 3 Parser cascade).

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