docs: audit and fix documentation inconsistencies

[avoidwork]

Description

Audit and resolve inconsistencies across README.md, docs/FLOWS.md, and docs/TUI_FLOWS.md. Aligns tool names, config values, flow diagrams, and command references with current implementation.

Type of Change

• Bugfix (non-breaking change which fixes an issue)
• New feature (non-breaking change which adds functionality)
• Breaking change (fix or feature that would cause existing functionality to not work as expected)
• Documentation update
• Refactor (no functional changes)
• Performance improvement
• CI / build / tooling

Testing

No code changes — documentation-only updates verified by visual inspection against current source code.

Coverage

• 100% line coverage maintained (N/A — no code changes)

Checklist

• npm run lint passes
• Tests pass with 100% line coverage
• No forbidden patterns used
• Conventional Commit style applied

Detailed Changes

README.md

• Updated tool names to match current implementation (execute_code, web_search, web_extract, image_generate, vision_analyze, text_to_speech, mixture_of_agents, cronJob)
• Updated config table: rate limit 120 → 60, memory limit 128mb → 512m, maxReadSize 10mb → 1mb
• Added skillScanPaths and trustProjectSkills config entries
• Added ephemeral.ttlDays and ephemeral.maxEntries config entries
• Added schedules.syncOnInit config entry
• Updated sandbox process description from forked to spawned
• Updated cron scheduler description to reflect system crontab delegation

docs/FLOWS.md

• Added crontab sync block to main index.js flow (Cron.sync, Cron.add)
• Added ensureSessionsDir and onboarding flow
• Updated memory module exports (loadMemories, formatMemoriesForPrompt replacing cleanRetainedMemory, enforceMaxEntries)
• Added GC init to startup flow
• Updated ScheduleManager instantiation (maxConcurrent param deprecated)
• Updated tool config building to include new params
• Updated ReactAgent creation to include recursionLimit
• Updated session config to use sessionState.getThreadId()
• Updated sandbox spawn call (stdio removed ipc, added note about fork vs spawn)
• Added clarifying note about fork() vs spawn() in sandbox

docs/TUI_FLOWS.md

• Added new App props: scheduleManager, onboarding, onSaveSession, gcManager, gcTrigger
• Updated command dispatch table: removed \:memory, \:context; added \:clear, \:new, \:gc
• Added note clarifying which commands are actually registered vs handled elsewhere