moflo 4.10.6 → 4.10.8

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Files changed (38) hide show
  1. package/.claude/guidance/shipped/moflo-cli-reference.md +1 -1
  2. package/.claude/guidance/shipped/moflo-memory-strategy.md +1 -1
  3. package/.claude/guidance/shipped/moflo-yaml-reference.md +19 -5
  4. package/.claude/skills/memory-optimization/SKILL.md +1 -1
  5. package/.claude/skills/memory-patterns/SKILL.md +3 -3
  6. package/.claude/skills/vector-search/SKILL.md +2 -2
  7. package/README.md +5 -5
  8. package/bin/lib/daemon-port.mjs +66 -0
  9. package/bin/session-start-launcher.mjs +189 -15
  10. package/bin/setup-project.mjs +38 -58
  11. package/dist/src/cli/commands/daemon.js +31 -10
  12. package/dist/src/cli/commands/doctor-checks-config.js +139 -1
  13. package/dist/src/cli/commands/doctor-checks-deep.js +105 -0
  14. package/dist/src/cli/commands/doctor-fixes.js +99 -2
  15. package/dist/src/cli/commands/doctor-registry.js +15 -2
  16. package/dist/src/cli/commands/memory.js +8 -8
  17. package/dist/src/cli/commands/neural.js +8 -6
  18. package/dist/src/cli/config/moflo-config.js +79 -3
  19. package/dist/src/cli/index.js +18 -19
  20. package/dist/src/cli/init/claudemd-generator.js +6 -2
  21. package/dist/src/cli/init/moflo-init.js +13 -21
  22. package/dist/src/cli/init/moflo-yaml-template.js +1 -1
  23. package/dist/src/cli/mcp-server.js +59 -10
  24. package/dist/src/cli/mcp-tools/memory-tools.js +46 -27
  25. package/dist/src/cli/memory/auto-memory-bridge.js +1 -1
  26. package/dist/src/cli/memory/controllers/attestation-log.js +1 -1
  27. package/dist/src/cli/memory/controllers/causal-graph.js +1 -1
  28. package/dist/src/cli/memory/daemon-write-client.js +178 -49
  29. package/dist/src/cli/memory/database-provider.js +58 -3
  30. package/dist/src/cli/memory/intelligence.js +54 -26
  31. package/dist/src/cli/memory/memory-initializer.js +21 -11
  32. package/dist/src/cli/services/claudemd-injection.js +173 -0
  33. package/dist/src/cli/services/daemon-dashboard.js +94 -25
  34. package/dist/src/cli/services/daemon-lock.js +390 -3
  35. package/dist/src/cli/services/daemon-port.js +217 -0
  36. package/dist/src/cli/version.js +1 -1
  37. package/package.json +2 -2
  38. package/dist/src/cli/config-adapter.js +0 -182
@@ -41,7 +41,7 @@ const DEFAULT_CONFIG = {
41
41
  code_map: true,
42
42
  },
43
43
  memory: {
44
- backend: 'sql.js',
44
+ backend: 'node-sqlite',
45
45
  embedding_model: 'Xenova/all-MiniLM-L6-v2',
46
46
  namespace: 'default',
47
47
  },
@@ -83,6 +83,7 @@ const DEFAULT_CONFIG = {
83
83
  scripts: true,
84
84
  helpers: true,
85
85
  hook_block_drift: 'warn',
86
+ claudemd_injection_drift: 'regenerate',
86
87
  },
87
88
  sandbox: {
88
89
  enabled: false,
@@ -137,6 +138,39 @@ function findConfigFile(root) {
137
138
  function positiveNumber(value, fallback) {
138
139
  return typeof value === 'number' && isFinite(value) && value > 0 ? value : fallback;
139
140
  }
141
+ const VALID_MEMORY_BACKENDS = new Set([
142
+ 'node-sqlite',
143
+ 'sql.js',
144
+ 'rvf',
145
+ 'json',
146
+ ]);
147
+ // Dedupe stderr warnings — `loadMofloConfig()` runs on every
148
+ // `createDatabase()` call that omits an explicit provider, so a single
149
+ // typo in moflo.yaml would otherwise spam N lines per process. Keyed by
150
+ // the offending raw value so unrelated typos still each emit once.
151
+ const _seenUnknownBackendWarnings = new Set();
152
+ /**
153
+ * Validate a raw `memory.backend` value against the narrow union. Unknown
154
+ * values (previously: `agentdb`, future typos) fall back to the default
155
+ * with a one-line stderr warning so consumers don't silently get the wrong
156
+ * backend after a migration.
157
+ *
158
+ * `sql.js` is accepted here but normalised later by
159
+ * {@link resolveDatabaseProvider} — keeping it in the YAML-side type lets
160
+ * existing `moflo.yaml` files keep parsing across the upgrade.
161
+ */
162
+ function coerceMemoryBackend(raw) {
163
+ if (typeof raw !== 'string' || raw.length === 0)
164
+ return DEFAULT_CONFIG.memory.backend;
165
+ if (VALID_MEMORY_BACKENDS.has(raw))
166
+ return raw;
167
+ if (!_seenUnknownBackendWarnings.has(raw)) {
168
+ _seenUnknownBackendWarnings.add(raw);
169
+ process.stderr.write(`[moflo] WARNING: unknown memory.backend "${raw}" in moflo.yaml — ` +
170
+ `falling back to "${DEFAULT_CONFIG.memory.backend}". Valid: ${[...VALID_MEMORY_BACKENDS].join(', ')}.\n`);
171
+ }
172
+ return DEFAULT_CONFIG.memory.backend;
173
+ }
140
174
  /**
141
175
  * Parse raw config object into typed config, merging with defaults.
142
176
  */
@@ -165,7 +199,7 @@ function mergeConfig(raw, root) {
165
199
  code_map: raw.auto_index?.code_map ?? raw.autoIndex?.code_map ?? DEFAULT_CONFIG.auto_index.code_map,
166
200
  },
167
201
  memory: {
168
- backend: raw.memory?.backend || DEFAULT_CONFIG.memory.backend,
202
+ backend: coerceMemoryBackend(raw.memory?.backend),
169
203
  embedding_model: raw.memory?.embedding_model || raw.memory?.embeddingModel || DEFAULT_CONFIG.memory.embedding_model,
170
204
  namespace: raw.memory?.namespace || DEFAULT_CONFIG.memory.namespace,
171
205
  },
@@ -212,6 +246,12 @@ function mergeConfig(raw, root) {
212
246
  ? v
213
247
  : DEFAULT_CONFIG.auto_update.hook_block_drift;
214
248
  })(),
249
+ claudemd_injection_drift: (() => {
250
+ const v = raw.auto_update?.claudemd_injection_drift ?? raw.autoUpdate?.claudemdInjectionDrift;
251
+ return v === 'regenerate' || v === 'off' || v === 'warn'
252
+ ? v
253
+ : DEFAULT_CONFIG.auto_update.claudemd_injection_drift;
254
+ })(),
215
255
  },
216
256
  sandbox: {
217
257
  enabled: raw.sandbox?.enabled ?? DEFAULT_CONFIG.sandbox.enabled,
@@ -354,7 +394,7 @@ auto_index:
354
394
 
355
395
  # Memory backend
356
396
  memory:
357
- backend: sql.js # sql.js (WASM, no native deps) | agentdb | json
397
+ backend: node-sqlite # node-sqlite (default) | rvf (pure-TS fallback) | json (last resort). Passed to createDatabase() as the preferred provider.
358
398
  embedding_model: Xenova/all-MiniLM-L6-v2
359
399
  namespace: default
360
400
 
@@ -409,6 +449,10 @@ auto_update:
409
449
  # warn = print drift summary on session start (default)
410
450
  # regenerate = auto-add missing hooks (only when no customisations)
411
451
  # off = skip detection entirely
452
+ claudemd_injection_drift: regenerate # warn | regenerate | off
453
+ # regenerate = auto-refresh CLAUDE.md MoFlo block on drift (default)
454
+ # warn = print drift summary on session start
455
+ # off = skip detection entirely
412
456
 
413
457
  # OS-level sandbox for spell bash steps
414
458
  # Denylist always runs regardless of this setting
@@ -460,4 +504,36 @@ export function writeMofloConfig(projectRoot) {
460
504
  fs.writeFileSync(configPath, content, 'utf-8');
461
505
  return configPath;
462
506
  }
507
+ // Dedupe stderr deprecation messages — one banner per (process, deprecated
508
+ // alias) keeps the noise to a single line per session even when multiple
509
+ // subsystems (daemon + indexer + statusline) all load the same config.
510
+ const _seenBackendDeprecations = new Set();
511
+ /**
512
+ * Map a YAML-side `memory.backend` value to the runtime
513
+ * {@link ResolvedMemoryBackend}. `sql.js` (deprecated since Phase 5 / #1084)
514
+ * is rewritten to `node-sqlite` with a one-time stderr deprecation note so
515
+ * consumers see they need to update their `moflo.yaml` but the run still
516
+ * succeeds.
517
+ *
518
+ * Centralising the mapping here is the whole point of #1144: every future
519
+ * caller that opens a DB based on the user's YAML knob goes through this
520
+ * helper, so the YAML schema and the runtime selection can never drift.
521
+ */
522
+ export function resolveDatabaseProvider(backend) {
523
+ if (backend === 'sql.js') {
524
+ if (!_seenBackendDeprecations.has(backend)) {
525
+ _seenBackendDeprecations.add(backend);
526
+ process.stderr.write(`[moflo] DEPRECATED: memory.backend "sql.js" in moflo.yaml — ` +
527
+ `sql.js was removed in Phase 5 (#1084). Using "node-sqlite" instead. ` +
528
+ `Update your moflo.yaml to silence this warning.\n`);
529
+ }
530
+ return 'node-sqlite';
531
+ }
532
+ return backend;
533
+ }
534
+ /** @internal — test hook only; resets the dedupe sets between cases. */
535
+ export function _resetBackendDeprecations() {
536
+ _seenBackendDeprecations.clear();
537
+ _seenUnknownBackendWarnings.clear();
538
+ }
463
539
  //# sourceMappingURL=moflo-config.js.map
@@ -519,30 +519,29 @@ export class CLI {
519
519
  }
520
520
  }
521
521
  /**
522
- * Load configuration file
522
+ * Load moflo project configuration.
523
+ *
524
+ * Returns the user's `moflo.yaml` merged with defaults so command actions
525
+ * can read project settings directly. Prior versions invoked a v2→v3
526
+ * SystemConfig adapter — collapsed in #1144 because nothing actually read
527
+ * `ctx.config.*` and the parallel schema was a silent-drift bug class.
528
+ *
529
+ * `configPath` (the global `--config` flag) used to point at a
530
+ * claude-flow SystemConfig file. With the adapter gone, the flag has no
531
+ * runtime effect; we surface a one-line warning when a consumer passes
532
+ * it so the silent-no-op is visible rather than mysterious. A future
533
+ * flag-driven override can plumb a directory through to
534
+ * `loadMofloConfig()` without touching callers.
523
535
  */
524
536
  async loadConfig(configPath) {
537
+ if (configPath) {
538
+ this.output.printWarning(`--config "${configPath}" is no longer honoured — moflo loads moflo.yaml ` +
539
+ `from the project root directly (#1144).`);
540
+ }
525
541
  try {
526
- // Import config utilities
527
- const { loadConfig: loadSystemConfig } = await import('./shared/index.js');
528
- const { systemConfigToV3Config } = await import('./config-adapter.js');
529
- // Load configuration
530
- const loaded = await loadSystemConfig({
531
- file: configPath,
532
- paths: configPath ? undefined : [process.cwd()],
533
- });
534
- // Convert to V3Config format
535
- const v3Config = systemConfigToV3Config(loaded.config);
536
- // Log warnings if any
537
- if (loaded.warnings && loaded.warnings.length > 0) {
538
- for (const warning of loaded.warnings) {
539
- this.output.printWarning(warning);
540
- }
541
- }
542
- return v3Config;
542
+ return loadMofloConfig();
543
543
  }
544
544
  catch (error) {
545
- // Config loading is optional - don't fail if it doesn't exist
546
545
  if (process.env.DEBUG) {
547
546
  this.output.writeln(this.output.dim(`Config loading failed: ${error.message}`));
548
547
  }
@@ -60,8 +60,12 @@ ${MARKER_END}`;
60
60
  export { MARKER_START, MARKER_END, LEGACY_MARKER_STARTS, LEGACY_MARKER_ENDS };
61
61
  /**
62
62
  * Generate the MoFlo section to inject into CLAUDE.md.
63
- * Template parameter is accepted for backward compatibility but ignored —
64
- * all templates now produce the same minimal injection.
63
+ *
64
+ * Both parameters are accepted for backward compatibility but ignored — all
65
+ * templates produce the same minimal injection and the options shape is no
66
+ * longer consulted. Optional so callers from both the dev tree (TS) and the
67
+ * dogfood launcher (plain JS) can invoke as `generateClaudeMd()` /
68
+ * `generateClaudeMd({})` interchangeably.
65
69
  */
66
70
  export function generateClaudeMd(_options, _template) {
67
71
  return mofloSection() + '\n';
@@ -15,7 +15,8 @@ import { execSync } from 'child_process';
15
15
  import { locateMofloRootPath } from '../services/moflo-require.js';
16
16
  import { errorDetail } from '../shared/utils/error-detail.js';
17
17
  import { discoverGuidanceDirs, discoverSrcDirs, discoverTestDirs, detectExtensions, renderMofloYaml, } from './moflo-yaml-template.js';
18
- import { generateClaudeMd as generateMofloSection, MARKER_START, MARKER_END, LEGACY_MARKER_STARTS, LEGACY_MARKER_ENDS, } from './claudemd-generator.js';
18
+ import { generateClaudeMd as generateMofloSection } from './claudemd-generator.js';
19
+ import { applyInjectionReplacement } from '../services/claudemd-injection.js';
19
20
  import { DEFAULT_INIT_OPTIONS } from './types.js';
20
21
  export { discoverTestDirs };
21
22
  // ============================================================================
@@ -400,29 +401,20 @@ function generateSkill(root, force) {
400
401
  // ============================================================================
401
402
  function generateClaudeMd(root, _force) {
402
403
  const claudeMdPath = path.join(root, 'CLAUDE.md');
403
- let existing = '';
404
- if (fs.existsSync(claudeMdPath)) {
405
- existing = fs.readFileSync(claudeMdPath, 'utf-8');
406
- // Strip current or legacy MoFlo block so we can re-inject the latest content.
407
- const allStartMarkers = [MARKER_START, ...LEGACY_MARKER_STARTS];
408
- const allEndMarkers = [MARKER_END, ...LEGACY_MARKER_ENDS];
409
- for (let i = 0; i < allStartMarkers.length; i++) {
410
- if (existing.includes(allStartMarkers[i])) {
411
- const startIdx = existing.indexOf(allStartMarkers[i]);
412
- const endIdx = existing.indexOf(allEndMarkers[i]);
413
- if (endIdx > startIdx) {
414
- existing = existing.substring(0, startIdx) + existing.substring(endIdx + allEndMarkers[i].length);
415
- }
416
- }
417
- }
418
- }
419
- // Single source of truth: claudemd-generator.ts owns the section content.
404
+ const existed = fs.existsSync(claudeMdPath);
405
+ const existing = existed ? fs.readFileSync(claudeMdPath, 'utf-8') : null;
406
+ // Single source of truth: claudemd-generator.ts owns the section content,
407
+ // claudemd-injection.ts owns the marker-replace logic. Replaces in place
408
+ // when a marker pair (current or legacy) already exists; otherwise creates
409
+ // a fresh CLAUDE.md or appends to a non-moflo one.
420
410
  const canonical = generateMofloSection(DEFAULT_INIT_OPTIONS);
421
- const finalContent = existing.trimEnd() + '\n\n' + canonical;
422
- fs.writeFileSync(claudeMdPath, finalContent, 'utf-8');
411
+ const result = applyInjectionReplacement(existing, canonical);
412
+ if (result.contents !== null && (result.changed || !existed)) {
413
+ fs.writeFileSync(claudeMdPath, result.contents, 'utf-8');
414
+ }
423
415
  return {
424
416
  name: 'CLAUDE.md',
425
- status: existing ? 'updated' : 'created',
417
+ status: existed ? 'updated' : 'created',
426
418
  detail: 'MoFlo section injected (~22 lines)',
427
419
  };
428
420
  }
@@ -215,7 +215,7 @@ auto_index:
215
215
 
216
216
  # Memory backend
217
217
  memory:
218
- backend: sql.js
218
+ backend: node-sqlite
219
219
  embedding_model: Xenova/all-MiniLM-L6-v2
220
220
  namespace: default
221
221
 
@@ -24,19 +24,44 @@ import * as os from 'os';
24
24
  import { fileURLToPath } from 'url';
25
25
  import { dirname } from 'path';
26
26
  import { errorDetail } from './shared/utils/error-detail.js';
27
+ import { findProjectRoot } from './services/project-root.js';
27
28
  // ESM-compatible __dirname
28
29
  const __filename = fileURLToPath(import.meta.url);
29
30
  const __dirname = dirname(__filename);
30
31
  /**
31
- * Default configuration
32
+ * Resolve the per-project `.moflo/` directory for MCP state files.
33
+ *
34
+ * Routed through the unified `findProjectRoot` so the launcher, daemon, healers
35
+ * and the MCP server all agree on the same anchor (see #1057, #1145).
36
+ * Replaces the prior `os.tmpdir()` location which was shared across every
37
+ * moflo consumer on the machine — concurrent projects overwrote each other's
38
+ * PID file and `flo mcp stop` could kill the wrong project's MCP server.
39
+ */
40
+ function resolveMcpStateDir() {
41
+ return path.join(findProjectRoot(), '.moflo');
42
+ }
43
+ /**
44
+ * Legacy tmpdir paths (pre-#1151). Kept only so we can clean up dead PID
45
+ * files left behind by older moflo versions. Never written to.
32
46
  */
33
- const DEFAULT_OPTIONS = {
34
- transport: 'stdio',
35
- pidFile: path.join(os.tmpdir(), 'claude-flow-mcp.pid'),
36
- logFile: path.join(os.tmpdir(), 'claude-flow-mcp.log'),
37
- tools: 'all',
38
- daemonize: false,
39
- };
47
+ const LEGACY_TMPDIR_PID_FILE = path.join(os.tmpdir(), 'claude-flow-mcp.pid');
48
+ const LEGACY_TMPDIR_LOG_FILE = path.join(os.tmpdir(), 'claude-flow-mcp.log');
49
+ /**
50
+ * Build default configuration at construction time. PID/log paths resolve
51
+ * against `findProjectRoot()` so each project gets its own MCP state files
52
+ * under `<projectRoot>/.moflo/`. Lazy so test code that sets
53
+ * `CLAUDE_PROJECT_DIR` per-test sees the override.
54
+ */
55
+ function buildDefaultOptions() {
56
+ const stateDir = resolveMcpStateDir();
57
+ return {
58
+ transport: 'stdio',
59
+ pidFile: path.join(stateDir, 'mcp-server.pid'),
60
+ logFile: path.join(stateDir, 'mcp-server.log'),
61
+ tools: 'all',
62
+ daemonize: false,
63
+ };
64
+ }
40
65
  /**
41
66
  * MCP Server Manager
42
67
  *
@@ -49,7 +74,7 @@ export class MCPServerManager extends EventEmitter {
49
74
  healthCheckInterval;
50
75
  constructor(options = {}) {
51
76
  super();
52
- this.options = { ...DEFAULT_OPTIONS, ...options };
77
+ this.options = { ...buildDefaultOptions(), ...options };
53
78
  }
54
79
  /**
55
80
  * Start the MCP server
@@ -461,11 +486,35 @@ export class MCPServerManager extends EventEmitter {
461
486
  this.healthCheckInterval.unref();
462
487
  }
463
488
  /**
464
- * Write PID file
489
+ * Write PID file. Ensures the per-project state directory exists and opportunistically
490
+ * cleans up an abandoned tmpdir PID file (pre-#1151 layout) when it points at a dead
491
+ * PID — abandoned dead-PID files belong to nobody so we can safely unlink them, but
492
+ * a live tmpdir PID is left alone since it may belong to another project on an
493
+ * older moflo version.
465
494
  */
466
495
  async writePidFile() {
467
496
  const pid = this.process?.pid || process.pid;
497
+ await fs.promises.mkdir(path.dirname(this.options.pidFile), { recursive: true });
468
498
  await fs.promises.writeFile(this.options.pidFile, String(pid), 'utf8');
499
+ await this.cleanupAbandonedTmpdirPid();
500
+ }
501
+ /**
502
+ * Remove a stale `<tmpdir>/claude-flow-mcp.pid` left by a pre-#1151 moflo if
503
+ * the PID it points to is no longer running. Live PIDs are preserved so we
504
+ * don't break stop/status for another project still on the old layout.
505
+ */
506
+ async cleanupAbandonedTmpdirPid() {
507
+ try {
508
+ const legacy = await fs.promises.readFile(LEGACY_TMPDIR_PID_FILE, 'utf8');
509
+ const legacyPid = parseInt(legacy.trim(), 10);
510
+ if (!Number.isNaN(legacyPid) && !this.isProcessRunning(legacyPid)) {
511
+ await fs.promises.unlink(LEGACY_TMPDIR_PID_FILE).catch(() => { });
512
+ await fs.promises.unlink(LEGACY_TMPDIR_LOG_FILE).catch(() => { });
513
+ }
514
+ }
515
+ catch {
516
+ // No legacy file (the common path post-upgrade) — nothing to do.
517
+ }
469
518
  }
470
519
  /**
471
520
  * Read PID file
@@ -1,17 +1,16 @@
1
1
  /**
2
- * Memory MCP Tools for CLI - V3 with sql.js/HNSW Backend
2
+ * Memory MCP Tools for CLI node:sqlite + HNSW backend
3
3
  *
4
- * UPGRADED: Now uses the advanced sql.js + HNSW backend for:
5
- * - 150x-12,500x faster semantic search
6
- * - Vector embeddings with cosine similarity
7
- * - Persistent SQLite storage (WASM)
8
- * - Backward compatible with legacy JSON storage (auto-migrates)
4
+ * Backed by Node's built-in `node:sqlite` engine (Phase 4 #1083 flipped the
5
+ * default; Phase 5 #1084 deleted the prior sql.js path) plus an HNSW vector
6
+ * index for semantic search. Auto-migrates legacy JSON stores on first use.
9
7
  *
10
8
  * @module v3/cli/mcp-tools/memory-tools
11
9
  */
12
10
  import { existsSync, mkdirSync, readFileSync, writeFileSync } from 'fs';
13
11
  import { join, resolve } from 'path';
14
12
  import { GateService } from '../services/spell-gate.js';
13
+ import { BACKEND_LABEL } from '../memory/database-provider.js';
15
14
  // Paths
16
15
  const MEMORY_DIR = '.moflo/memory';
17
16
  const LEGACY_MEMORY_FILE = 'store.json';
@@ -108,7 +107,7 @@ function shapeRetrievedEntry(entry) {
108
107
  hasEmbedding: entry.hasEmbedding,
109
108
  navigation: parseNavigation(entry.metadata, 'full'),
110
109
  found: true,
111
- backend: 'sql.js + HNSW',
110
+ backend: BACKEND_LABEL,
112
111
  };
113
112
  }
114
113
  function validateMemoryInput(key, value, query) {
@@ -185,7 +184,7 @@ async function ensureInitialized() {
185
184
  if (hasLegacyStore()) {
186
185
  const legacyStore = loadLegacyStore();
187
186
  if (legacyStore && Object.keys(legacyStore.entries).length > 0) {
188
- console.error('[MCP Memory] Migrating legacy JSON store to sql.js...');
187
+ console.error('[MCP Memory] Migrating legacy JSON store to node:sqlite...');
189
188
  let migrated = 0;
190
189
  for (const [key, entry] of Object.entries(legacyStore.entries)) {
191
190
  try {
@@ -211,7 +210,7 @@ async function ensureInitialized() {
211
210
  export const memoryTools = [
212
211
  {
213
212
  name: 'memory_store',
214
- description: 'Store a value in memory with vector embedding for semantic search (sql.js + HNSW backend). Upserts by default — pass upsert:false to fail on duplicate keys. Optional `metadata` lets chunk-row producers set the navigation fields (parentDoc, prevChunk, nextChunk, siblings, …) that `memory_get_neighbors` reads.',
213
+ description: 'Store a value in memory with vector embedding for semantic search (node:sqlite + HNSW backend). Upserts by default — pass upsert:false to fail on duplicate keys. Optional `metadata` lets chunk-row producers set the navigation fields (parentDoc, prevChunk, nextChunk, siblings, …) that `memory_get_neighbors` reads.',
215
214
  category: 'memory',
216
215
  inputSchema: {
217
216
  type: 'object',
@@ -268,7 +267,7 @@ export const memoryTools = [
268
267
  storedAt: new Date().toISOString(),
269
268
  hasEmbedding: !!result.embedding,
270
269
  embeddingDimensions: result.embedding?.dimensions || null,
271
- backend: 'sql.js + HNSW',
270
+ backend: BACKEND_LABEL,
272
271
  storeTime: `${duration.toFixed(2)}ms`,
273
272
  error: result.error,
274
273
  };
@@ -387,7 +386,7 @@ export const memoryTools = [
387
386
  query,
388
387
  results,
389
388
  total: results.length,
390
- backend: 'HNSW + sql.js',
389
+ backend: BACKEND_LABEL,
391
390
  };
392
391
  }
393
392
  catch (error) {
@@ -479,7 +478,7 @@ export const memoryTools = [
479
478
  include,
480
479
  neighbors,
481
480
  total: neighbors.length,
482
- backend: 'sql.js + HNSW',
481
+ backend: BACKEND_LABEL,
483
482
  };
484
483
  }
485
484
  catch (error) {
@@ -524,7 +523,7 @@ export const memoryTools = [
524
523
  key,
525
524
  namespace,
526
525
  deleted,
527
- backend: 'sql.js + HNSW',
526
+ backend: BACKEND_LABEL,
528
527
  ...(errorReason ? { error: errorReason } : {}),
529
528
  };
530
529
  }
@@ -577,7 +576,7 @@ export const memoryTools = [
577
576
  total: result.total,
578
577
  limit,
579
578
  offset,
580
- backend: 'sql.js + HNSW',
579
+ backend: BACKEND_LABEL,
581
580
  };
582
581
  }
583
582
  catch (error) {
@@ -601,27 +600,47 @@ export const memoryTools = [
601
600
  },
602
601
  handler: async () => {
603
602
  await ensureInitialized();
604
- const { checkMemoryInitialization, listEntries } = await getMemoryFunctions();
603
+ const { checkMemoryInitialization } = await getMemoryFunctions();
605
604
  try {
606
605
  const status = await checkMemoryInitialization();
607
- const allEntries = await listEntries({ limit: 100000 });
608
- // Count by namespace
609
- const namespaces = {};
610
- let withEmbeddings = 0;
611
- for (const entry of allEntries.entries) {
612
- namespaces[entry.namespace] = (namespaces[entry.namespace] || 0) + 1;
613
- if (entry.hasEmbedding)
614
- withEmbeddings++;
606
+ // #1149 server-side aggregation. The pre-fix path iterated every
607
+ // namespace via listEntries({limit:100000}) and tripped the daemon's
608
+ // `limit 10 000` cap → 400 → tryDaemonList defaulted total to 0 →
609
+ // the MCP tool silently reported zero entries on populated DBs.
610
+ // Route through the dedicated stats endpoint; on routed:false, run
611
+ // the same GROUP BY in-process so users always see real counts; on
612
+ // a daemon error, surface it rather than masking it as zero.
613
+ const { tryDaemonStats } = await import('../memory/daemon-write-client.js');
614
+ const routed = await tryDaemonStats();
615
+ let namespaces;
616
+ let totalEntries;
617
+ let withEmbeddings;
618
+ if (routed.routed && routed.data) {
619
+ ({ namespaces, totalEntries, withEmbeddings } = routed.data);
620
+ }
621
+ else if (routed.routed && routed.error) {
622
+ return {
623
+ initialized: status.initialized,
624
+ error: `daemon memory_stats failed: ${routed.error}`,
625
+ backend: BACKEND_LABEL,
626
+ };
627
+ }
628
+ else {
629
+ const { getNamespaceCounts } = await import('../memory/memory-initializer.js');
630
+ const direct = await getNamespaceCounts();
631
+ namespaces = direct.namespaces;
632
+ totalEntries = direct.total;
633
+ withEmbeddings = direct.withEmbeddings;
615
634
  }
616
635
  return {
617
636
  initialized: status.initialized,
618
- totalEntries: allEntries.total,
637
+ totalEntries,
619
638
  entriesWithEmbeddings: withEmbeddings,
620
- embeddingCoverage: allEntries.total > 0
621
- ? `${((withEmbeddings / allEntries.total) * 100).toFixed(1)}%`
639
+ embeddingCoverage: totalEntries > 0
640
+ ? `${((withEmbeddings / totalEntries) * 100).toFixed(1)}%`
622
641
  : '0%',
623
642
  namespaces,
624
- backend: 'sql.js + HNSW',
643
+ backend: BACKEND_LABEL,
625
644
  version: status.version || '3.0.0',
626
645
  features: status.features || {
627
646
  vectorEmbeddings: true,
@@ -3,7 +3,7 @@
3
3
  *
4
4
  * Per ADR-048: Bridges Claude Code's auto memory (markdown files at
5
5
  * ~/.claude/projects/<project>/memory/) with claude-flow's unified memory
6
- * system (MofloDb: sql.js + HNSW).
6
+ * system (MofloDb: node:sqlite + HNSW).
7
7
  *
8
8
  * Auto memory files are human-readable markdown that Claude loads into its
9
9
  * system prompt. MEMORY.md (first 200 lines) is the entrypoint; topic files
@@ -2,7 +2,7 @@
2
2
  * AttestationLog — moflo-owned append-only audit log (epic #464 Phase C2).
3
3
  *
4
4
  * Replaces `agentdb.AttestationLog`. Writes observability records into a
5
- * sql.js-backed table with a hash chain so tampering can be detected.
5
+ * SQLite table with a hash chain so tampering can be detected.
6
6
  *
7
7
  * Consumer surface (from src/cli/memory/memory-bridge.ts):
8
8
  * - record({ operation, entryId, timestamp?, ...metadata })
@@ -2,7 +2,7 @@
2
2
  * CausalGraph — moflo-owned causal edge store.
3
3
  *
4
4
  * Replaces `agentdb.CausalGraph.addEdge`. Stores typed edges between
5
- * memory-entry IDs in a sql.js-backed table with composite indexes so
5
+ * memory-entry IDs in a SQLite table with composite indexes so
6
6
  * CausalRecall's BFS walks don't hit a full scan on the relation filter.
7
7
  */
8
8
  import { clamp01, clampInt, parseJsonSafe } from './_shared.js';