docs: sync README Commands with managed CLI help (#129)

[aadivyaraushan]

Summary

• Sync README Commands with current top-level CLI help for managed-CLI drift beyond sync README command list with CLI help #130 (refs docs: README command list is out of sync with CLI help #129).
• Add greplica uninstall, a Managed administration block covering every top-level org *, invite *, and remaining repo * usage string, and a curated-subset note pointing to greplica --help.
• Align proposal placeholders with CLI help (<proposal.json> → <file>). Keep sync README command list with CLI help #130 items: embeddings prewarm, session mark-memory-current, OpenCode in transcript bundle.

Test plan / dry-run evidence

Gates cleared on commit 2ca657c before opening this PR (iterate-until-green).

Build + CLI help

npm ci && npm run build
node dist/apps/cli/main.js --help

Transcript:

Usage:
  main.js install --mode local|managed [--platform codex|claude|copilot|cursor|opencode|openhands|factory-droid|antigravity] [--embedding local|openai] [--managed-repo <id>] [--hooks enabled|disabled] [--auto-memory enabled|disabled]
  main.js uninstall
  main.js repo status
  main.js login [--api-url <url>]
  main.js logout
  main.js whoami
  main.js org create --name <name> [--slug <slug>]
  main.js org list
  main.js org invite --org <id> --github-user <login>
  main.js org members --org <id>
  main.js org role --org <id> --user <id> --role admin|member|guest
  main.js org remove-member --org <id> --user <id>
  main.js org leave --org <id>
  main.js invite list
  main.js invite accept <id>
  main.js invite revoke <id>
  main.js repo create --org <id> --name <name>
  main.js repo list
  main.js repo connect --managed-repo <id> [--confirm-mode-switch] [--confirm-rebind]
  main.js repo rebind --managed-repo <id> --confirm-rebind
  main.js repo github-install
  main.js repo enroll-github --org <id> --installation <id> --github-repo <id> [--name <name>]
  main.js repo link-github --installation <id> --github-repo <id>
  main.js repo archive
  main.js repo restore
  main.js repo discovery --discovery listed|unlisted
  main.js repo invite-reader --github-user <login>
  main.js repo grant-memory-admin --user <id>
  main.js repo revoke-memory-admin --user <id>
  main.js repo request-access --managed-repo <id>
  main.js repo access-requests
  main.js repo approve-access --request <id>
  main.js repo deny-access --request <id>
  main.js repo publish --from-local
  main.js config
  main.js doctor [--check-embeddings]
  main.js embeddings prewarm
  main.js graph read
  main.js graph context <query> [--debug]
  main.js graph audit anchors
  main.js graph export <dir>
  main.js graph view [--out <file>] [--no-open]
  main.js proposal validate <file>
  main.js proposal apply <file>
  main.js session mark-memory-current --session-ref <ref>
  main.js transcript bundle --platform codex|claude|copilot|opencode --file <path> [--file <path>...] --out <bundle.md>

Reviewer checklist (PASS)

Check	Result
Every top-level --help usage appears in README Commands or Managed administration (curated-subset note covers intentional subset framing)	PASS
Managed administration block complete (all org *, invite *, remaining repo *)	PASS (28 usage lines)
#130 items still present (embeddings prewarm, session mark-memory-current, OpenCode in transcript bundle)	PASS
Proposal placeholders use <file>; curated-subset note present	PASS

Refs

Closes / addresses managed-CLI docs drift for #129 (original #130 gaps already fixed).

Made with Cursor

[Copilot]

Copilot was unable to review this pull request because the user who requested the review has reached their quota limit.