docs: factuality sweep — fix 3 broken links + 12 count claims (audit findings 2026-05-05)

Per the cowork/docs-audit-2026-05-05/ end-to-end factuality audit
(20 confirmed findings across 76 docs, 7 parallel subagents +
audit-of-the-audit). Hot + Warm tier fixes ship here; STALE
findings (qa-test-suite.md test-count snapshot) need 'make
qa-stats' which is operator-side.

BROKEN links repaired (3):
- docs/reference/api.md L195: [Quick Start](quickstart.md) →
  ../getting-started/quickstart.md (404 pre-fix)
- docs/reference/api.md L196: [Connector Guide](connectors.md) →
  connectors/index.md (Phase 4 rename, was 404 pre-fix)
- docs/reference/protocols/scep-intune.md L377:
  [legacy-est-scep.md](legacy-est-scep.md) → scep-server.md
  (file was deleted in Phase 7 commit e9b1510)

INCORRECT count claims repaired (12):
- api.md L5 + L18-19 + L155: '78 API operations' / '# 78' /
  'all 78 documented operations' → re-derive via
  grep -cE '^\s+operationId:' (actual at HEAD: 144)
- architecture.md L66 (Mermaid label) + L502 + L1047 + L1253:
  '8 always-on + 4 optional loops' / '12-loop topology' →
  9 always-on + 5 opt-in loops (14 total). Always-on/opt-in
  breakdown derived from cmd/server/main.go startup wiring:
  always-on are agentHealthCheck, crlGeneration, jobProcessor,
  jobRetry, jobTimeout, notificationProcess, notificationRetry,
  renewalCheck, shortLivedExpiryCheck (9); opt-in are
  networkScan, digest, healthCheck, cloudDiscovery, acmeGC (5).
  Re-derive count via grep -cE '^func \(s \*Scheduler\)
  [a-zA-Z]+Loop' internal/scheduler/scheduler.go.
- configuration.md L31: '12 loops, 8 always-on + 4 opt-in' →
  '14 loops, 9 always-on + 5 opt-in'. Self-introduced regression
  from commit 3275f9f (2026-05-05).
- mcp.md L11 + L65: 'all 78 API endpoints' / '78 available tools'
  → re-derive via grep -cE 'mcp\.AddTool\(' (actual at HEAD:
  87 MCP tools, 144 API operations).
- connectors/index.md L111: '9 built-in' issuer connectors →
  '12 built-in', extending the inline enumeration to include
  Entrust, GlobalSign, EJBCA (which had been added since the
  L111 prose was written). Local-CA framing extended to mention
  tree mode + ADCS sub-CA mode-doc.
- connectors/index.md L112: '14 built-in' target connectors →
  '15 built-in', adding AWS ACM target + Azure Key Vault target
  (which had been added since the L112 prose was written).
- why-certctl.md L37 + the inline list: 'Nine issuer connectors
  ship today' → 'Twelve issuer connectors', adding
  AWS ACM PCA, Entrust, GlobalSign, EJBCA to the list and
  removing the misleading 'EST enrollment' bullet (EST is a
  protocol surface, not an issuer; clarified in trailing note).
- why-certctl.md L66: '13 deployment targets' → '15', adding
  Kubernetes Secrets, AWS ACM, and Azure KV to the inline list.
- why-certctl.md L92: 'supports 9 issuer types' → '12 issuer
  types'.
- quickstart.md L135: '35 demo certificates across 5 issuers'
  → re-derive cert count via 'grep -oE "mc-[a-z0-9_-]+"
  migrations/seed_demo.sql | sort -u | wc -l' (actual: 32,
  matches README L86; quickstart was off-by-3).
- quickstart.md L452 (Demo Data Reference table): Certificates
  '35' → '32' (matches the cert count from seed_demo.sql).

Verification:
- grep confirms no remaining stale refs across the touched
  files (8 files, 31 insertions / 28 deletions).
- All 24 ci-guards/*.sh pass locally.
- The audit's STALE findings (S-1, S-2 qa-test-suite.md
  Bundle-P snapshot) are operator-side: run 'make qa-stats'
  to refresh the Test Suite Health table.

Companion: cowork/docs-audit-2026-05-05/RESULTS.md captures
the full audit with subagent false positives and missed
findings called out.

docs/reference/api.md

@@ -2,7 +2,7 @@
 
 > Last reviewed: 2026-05-05
 
-certctl ships with a complete OpenAPI 3.1 specification at `api/openapi.yaml`. This spec documents all 78 API operations currently specified, every request/response schema, pagination conventions, authentication requirements, and error formats. It's the single source of truth for the documented REST API. (Note: The spec will be updated to include 7 additional certificate discovery endpoints from M18b.)
+certctl ships with a complete OpenAPI 3.1 specification at `api/openapi.yaml`. The spec documents every operation (re-derive count via `grep -cE '^\s+operationId:' api/openapi.yaml`), every request/response schema, pagination conventions, authentication requirements, and error formats. It's the single source of truth for the documented REST API.
 
 This guide covers how to use the spec for API exploration, client SDK generation, and integration testing.
 
@@ -14,9 +14,8 @@ The spec lives at `api/openapi.yaml` in the repository root. It's versioned alon
 # View the spec
 cat api/openapi.yaml
 
-# Count operations
-grep "operationId:" api/openapi.yaml | wc -l
-# 78 (includes health + ready, 7 discovery endpoints pending spec update)
+# Count operations (includes health + ready)
+grep -cE '^\s+operationId:' api/openapi.yaml
 ```
 
 ## Viewing with Swagger UI
@@ -153,7 +152,7 @@ npx @apidevtools/swagger-cli validate api/openapi.yaml
 Import the spec directly into Postman:
 
 1. Open Postman → Import → File → select `api/openapi.yaml`
-2. Postman creates a collection with all 78 documented operations organized by tag
+2. Postman creates a collection with every documented operation organized by tag
 3. Set the `baseUrl` variable to `https://localhost:8443` (HTTPS-only as of v2.2)
 4. Add an `Authorization: Bearer your-api-key` header to the collection
 5. Import the demo stack CA bundle (`deploy/test/certs/ca.crt`) into Postman's Settings → Certificates → CA Certificates, or disable certificate verification for the `localhost` host (Settings → General → SSL certificate verification)
@@ -193,6 +192,6 @@ This sends randomized valid requests to every endpoint and verifies the response
 ## What's Next
 
 - [MCP Server Guide](mcp.md) — AI-native access to the certctl API
-- [Quick Start](quickstart.md) — Get certctl running locally
-- [Connector Guide](connectors.md) — Build custom issuer and target connectors
+- [Quick Start](../getting-started/quickstart.md) — Get certctl running locally
+- [Connector Guide](connectors/index.md) — Build custom issuer and target connectors
 - [Architecture](architecture.md) — System design deep dive