- Replaced file-backed autoresearch contracts with sqlite-backed session/run storage in `~/.omp/autoresearch`.
- Added `AutoresearchStorage` and rewired `init_experiment`, `run_experiment`, and `log_experiment` to persist sessions and runs.
- Added `update_notes` tool with `body`/`append_idea` inputs and updated prompts to use active-session context.
- Removed `autoresearch.md` contract parsing and checks flow, including `runChecks`, `force`, and timeout schema options.
- Updated autoresearch state/types to persist `goal`, `notes`, `branch`, and `baselineCommit` plus run justification/flag metadata.
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