release: prepare Desktop 0.13.12 and Agent 0.13.3

Complete the pending Supervisor changes with opt-in execution, incremental automatic reviews, and activity history. Preserve saved preferences and plans, skip model calls for unchanged input, and keep full replay and cancellation limitations explicit.

Update both release versions, bilingual notes, feature matrices, migration fixtures, and validation evidence. Clear stale browser errors after a successful close retry. Focused validation passed 690 tests across 35 files, plus notes verification, typecheck, and lint; full CI and native release acceptance remain pending. No local production build or packaging was run.

Release note: Enable Supervisor to review work, trace story graphs, and inspect manual or automatic activity without repeating model calls for unchanged input. Desktop 0.13.12 and Agent 0.13.3 also prepare idle remote Runtime cleanup and retirement of replaced Agents; update Desktop before the Host environment. Database upgrades require a pre-upgrade backup for rollback.

src/main/application-settings-store.test.ts

@@ -44,6 +44,47 @@ afterEach(async () => {
 })
 
 describe('ApplicationSettingsStore', () => {
+  it.each([11, 12])('defaults missing supervisor preference to off in version %s through unrelated updates and reload', async (version) => {
+    const { filePath, store } = await createStore()
+    const legacy = { ...defaultApplicationSettings, version, lastSeenReleaseNotesVersion: null }
+    delete legacy.heartbeatEnabled
+    await writeFile(filePath, JSON.stringify(legacy), 'utf8')
+
+    expect(await store.get()).toEqual({ ...defaultApplicationSettings, heartbeatEnabled: false })
+    const changed = vi.fn()
+    store.onChanged(changed)
+    const updated = await store.update({ checkUpdatesOnStartup: false })
+    expect(updated).toMatchObject({ heartbeatEnabled: false, checkUpdatesOnStartup: false })
+    expect(changed).toHaveBeenCalledExactlyOnceWith(updated)
+    expect(await createApplicationSettingsStore(filePath).get()).toEqual(updated)
+  })
+
+  it.each([
+    { version: 11, heartbeatEnabled: true },
+    { version: 11, heartbeatEnabled: false },
+    { version: 12, heartbeatEnabled: true },
+    { version: 12, heartbeatEnabled: false },
+  ])('preserves supervisor preference $heartbeatEnabled in version $version through unrelated updates and reload', async ({ version, heartbeatEnabled }) => {
+    const { filePath, store } = await createStore()
+    await writeFile(filePath, JSON.stringify({
+      ...defaultApplicationSettings, version, lastSeenReleaseNotesVersion: null, heartbeatEnabled,
+    }), 'utf8')
+
+    expect((await store.get()).heartbeatEnabled).toBe(heartbeatEnabled)
+    expect((await store.update({ checkUpdatesOnStartup: false })).heartbeatEnabled).toBe(heartbeatEnabled)
+    expect(JSON.parse(await readFile(filePath, 'utf8')).heartbeatEnabled).toBe(heartbeatEnabled)
+    expect((await createApplicationSettingsStore(filePath).get()).heartbeatEnabled).toBe(heartbeatEnabled)
+  })
+
+  it('persists explicit supervisor enable and disable choices', async () => {
+    const { filePath, store } = await createStore()
+    for (const heartbeatEnabled of [true, false]) {
+      expect((await store.update({ heartbeatEnabled })).heartbeatEnabled).toBe(heartbeatEnabled)
+      await store.update({ checkUpdatesOnStartup: false })
+      expect((await createApplicationSettingsStore(filePath).get()).heartbeatEnabled).toBe(heartbeatEnabled)
+    }
+  })
+
   it('defaults missing historical canvas page counts and persists updates without resetting other preferences', async () => {
     const { filePath, store } = await createStore()
     const legacy: Record<string, unknown> = { ...defaultApplicationSettings, version: 12,
@@ -173,6 +214,7 @@ describe('ApplicationSettingsStore', () => {
     const { directory, store } = await createStore()
 
     await expect(store.get()).resolves.toEqual(defaultApplicationSettings)
+    expect(defaultApplicationSettings.heartbeatEnabled).toBe(false)
     expect(await store.get()).toMatchObject({ localInferenceEnabled: true, applicationNavigation: defaultApplicationSettings.applicationNavigation })
     await expect(readdir(directory)).resolves.toEqual([])
   })