- Schema: migrations now execute ALTER TABLE ADD COLUMN for state/message_count
- MemoryStore: add update_agent_runtime() and list_agents_with_runtime()
- Registry: add register_with_runtime() to accept persisted state/message_count
- Kernel boot: restore agents with their persisted state (not always Running)
- Kernel shutdown: persist all agent states/message_counts before terminating
Agents that were suspended stay suspended after restart. Message counts
survive restarts instead of resetting to 0.
