feat(agent): add configurable reasoning stream and in-OS ops tools
Add configurable reasoning/process visibility to /bin/agent via ~/.agent/config.json and setup wizard prompts, including bounded output and optional tool trace display. Expand agent capabilities with operational tools for service/timer inspection, cron/audit log reads, boot policy and kernel extension resolution, plus a new seeded agent-ops skill and updated workspace docs/tests to support the new automation workflow.
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