Restore state-backed tool call IDs

[brandonkachen]

Summary

• Restore deterministic tool call IDs using the functions.<tool>.<index> shape with a run/session-backed monotonic counter.
• Seed the counter from retained history and pending calls, including the older colon-delimited deterministic ID shape.
• Share the counter through spawned agent state while keeping the public agent template types free of internal allocator state.

Validation

• bun test packages/agent-runtime/src/util/__tests__/tool-call-id.test.ts packages/agent-runtime/src/__tests__/run-programmatic-step.test.ts packages/agent-runtime/src/__tests__/tool-validation-error.test.ts
• bun run --cwd packages/agent-runtime typecheck
• bun run --cwd common typecheck
• bun run --cwd packages/agent-runtime test
• NODE_ENV=production bun test cli/src/utils/__tests__/sdk-event-handlers.test.ts cli/src/utils/__tests__/message-block-helpers.test.ts cli/src/utils/__tests__/send-message-helpers.test.ts
• bun run --cwd cli typecheck
• bun run --cwd cli src/index.tsx --help