docs: fix plan/repo drift, retire dead Goose+Nomos and Caveman tooling

Documentation and repo-hygiene pass following the client/server split:

Plan drift (audited all other active plans against current code):
- oikos-gaps-and-improvements.md: mark Section C and D.5 resolved (both
  described cmd/hermes, renamed to cmd/nomos with a real LLM loop since);
  refresh ~10 stale file:line citations; fix tool-count (33, not 28).
- liveness-drift-and-ux-cohesion.md: fix stale default-model claim (now
  deepseek-v4-pro since 2026-07-10) and "not yet deployed" status.
- nomos-agent-code-review.md: fix C1's citation (one unauthenticated route
  to nomos now, not two, after the client/server split).
- wails-desktop-app.md: record the production deploy outcome.

Repo structure: added missing directories to README/CONTRIBUTING layout
tables (checks/, tools/, cmd/webhook/, docs/operations/), fixed a broken
link, added ADR 0015 documenting the auth/CORS/client-split model (there
wasn't one despite CONTRIBUTING's own process requiring it), normalized
ADR 0013/0014's format drift, added an Authentication section to
AGENTS.md/CLIENTS.md (every example call was missing the now-required
bearer header).

Retired the Goose+Nomos workstation flow (bootstrap.sh --with-nomos,
tools/setup-nomos-soul.sh, .agents/operations/nomos-agent.md) and the
Caveman auto-install tooling (tools/setup-caveman.sh, tools/caveman/) —
both superseded by the production containerized Nomos agent, which has
never used either. Kept .agents/shared/caveman.md itself (the terse
writing-style convention agents still follow by reading it).

Deleted the orphaned legacy Python oikos/ directory — nothing imports it,
and bin/homelab (the CLI it was kept for) no longer exists in the repo.

Rewrote .agents/operations/agent-enrollment.md (365 -> ~110 lines) and
commands.md to match the current architecture instead of the retired
`homelab` CLI; migrated the still-true networking prerequisites (Netbird,
split-horizon DNS, SSH key distribution) into the knowledge base as a
runbook via upsert_knowledge rather than duplicating them in markdown.
Updated all 10 .agents/skills/ runbooks referencing the dead CLI with
their real MCP tool / REST API equivalents, or flagged them as needing
verification where no equivalent is confirmed yet.

Two real bugs found and fixed, not just docs:
- The tools/setup-*.sh auto-setup glob was tools/*.setup.sh in THREE
  places (tools/post-pull.sh, bootstrap.sh, and internal/httpapi/impl.go's
  GetClientContext handler) since the mechanism's introduction on
  2026-06-02 — never matched any real filename, so no client has ever
  picked up an auto-setup script via git-pull or the context-poller sync.
  Fixed all three; the Go server-side fix is the one that actually matters
  since it's what the current context-poller mechanism depends on.
- bootstrap.sh removed dead vestigial --gitea-token/--gitea-user flags
  (parsed, never consumed) left over from an earlier clone-based model.

Also flagged, not fixed (documented as an open gap in
client-enrollment/SKILL.md): bootstrap.sh tells a freshly-enrolled client
to call POST /api/v1/clients/{slug}/activate to finish enrollment, but
that route doesn't exist in api/openapi.yaml — EnrollClient sets entities
to provisioning and nothing currently transitions them to active.

Co-Authored-By: Claude Sonnet 5 <noreply@anthropic.com>

README.md

@@ -65,7 +65,7 @@ cd web && OIKOS_API_TOKEN=dev-token npm run dev   # http://localhost:5173
 | 5 — Secrets | ✅ | Infisical backend + SOPS fallback, rotation runbooks |
 | 6 — Deploy | ✅ | CI pipeline, cutover checklist, watchdog, rollback |
 
-Full plan: [plans/2026-07-06-consolidate-oikos-control-plane-onto-mac-mini.md](plans/2026-07-06-consolidate-oikos-control-plane-onto-mac-mini.md).
+Full plan: [plans/done/2026-07-06-consolidate-oikos-control-plane-onto-mac-mini.md](plans/done/2026-07-06-consolidate-oikos-control-plane-onto-mac-mini.md).
 
 ## Operations
 
@@ -120,6 +120,7 @@ output). A native desktop wrapper is planned — see
 ```
 cmd/oikos/          Go entry point — single binary
 cmd/nomos/          Nomos MCP client gateway
+cmd/webhook/        Gitea deploy-webhook receiver (push-to-deploy on mac-mini)
 internal/           Go packages (httpapi, mcp, scheduler, actuator, learning,
                     notifier, policy, secrets, db, config, ontology, domain,
                     knowledge)
@@ -129,11 +130,16 @@ migrations/         Forward-only SQL migrations (TimescaleDB)
 seeds/              Bootstrap YAML (ontology, inventory, policy, knowledge)
 compose/            Dockerfiles + Caddy config
 scripts/            Deploy, watchdog, verification, rollback
+checks/             Host health-check scripts run over SSH by the scheduler
+tools/              Client auto-setup scripts (checks)
+ssh/                Deploy keys + authorized_keys management
+vps/                Caddy/TURN config templates for the netbird VPS
 nomos/              Nomos config, persona, skills
 .agents/            Agent instruction files, shared conventions, skills
 archive/            Historical reference (legacy wiki, plans, SOPS backups)
 plans/              Design documents (active + done)
 docs/adr/           Architecture decision records
+docs/operations/    Runbooks (rollback, etc.)
 ```
 
 ## For agents