chore(state): full refresh of STATE.a2ml for repo-batcher #56 milestone

[hyperpolymath]

Full refresh of the machine-readable project checkpoint (.machine_readable/6a2/STATE.a2ml), which was a 2026-04-25 snapshot pre-dating the #56 build-out.

Updated (factually derived): last-updated, phase, recent-changes, session-history (L1–L8 build-out PR #59 / 4c2d29f / #56 CLOSED; docs-truth PR #61); new [dogfooding-status] repo-batcher with real just e2e evidence; completion-percentage 65→68 with an inline coarse-basis note.

Deliberately NOT fabricated (anti-fiction):

• crg-grade stays D — D→C requires the formal docs/governance/CRG-AUDIT process + CI green, never self-assessed. Notes record Implement repo-batcher Zig FFI/CLI from scratch (no V ever existed; stub only) #56 as strengthening a future C claim only.
• tests-passing kept as the 2026-04-04 baseline, explicitly marked not re-run post-Implement repo-batcher Zig FFI/CLI from scratch (no V ever existed; stub only) #56.
• An INTEGRITY NOTE header states which fields are derived vs deferred.

Refs #56 (CLOSED-COMPLETED — machine-state follow-up, not a reopen).

🤖 Generated with Claude Code

[github-actions]

🔍 Hypatia Security Scan

Findings: 195 issues detected

Severity	Count
🔴 Critical	14
🟠 High	112
🟡 Medium	69

⚠️ Action Required: Critical security issues found!

View findings

[
  {
    "reason": "Issue in quality.yml",
    "type": "missing_workflow",
    "file": "quality.yml",
    "action": "create",
    "rule_module": "workflow_audit",
    "severity": "high"
  },
  {
    "reason": "Issue in security-policy.yml",
    "type": "missing_workflow",
    "file": "security-policy.yml",
    "action": "create",
    "rule_module": "workflow_audit",
    "severity": "medium"
  },
  {
    "reason": "Action hyperpolymath/standards/.github/workflows/governance-reusable.yml@main needs attention",
    "type": "unpinned_action",
    "file": "governance.yml",
    "action": "pin_sha",
    "rule_module": "workflow_audit",
    "severity": "high"
  },
  {
    "reason": "TypeScript file detected -- banned language",
    "type": "banned_language_file",
    "file": "/home/runner/work/reposystem/reposystem/tools/rsr-certified/extensions/vscode/src/extension.ts",
    "action": "flag",
    "rule_module": "cicd_rules",
    "severity": "critical"
  },
  {
    "reason": "innerHTML assignment -- XSS risk, use textContent or SafeDOM (5 occurrences, CWE-79)",
    "type": "js_innerhtml",
    "file": "/home/runner/work/reposystem/reposystem/stateful-artefacts/browser-extension/scripts/popup.js",
    "action": "flag",
    "rule_module": "code_safety",
    "severity": "high"
  },
  {
    "reason": "innerHTML assignment -- XSS risk, use textContent or SafeDOM (1 occurrences, CWE-79)",
    "type": "js_innerhtml",
    "file": "/home/runner/work/reposystem/reposystem/stateful-artefacts/browser-extension/scripts/content.js",
    "action": "flag",
    "rule_module": "code_safety",
    "severity": "high"
  },
  {
    "reason": "innerHTML assignment -- XSS risk, use textContent or SafeDOM (4 occurrences, CWE-79)",
    "type": "js_innerhtml",
    "file": "/home/runner/work/reposystem/reposystem/stateful-artefacts/dashboard/js/dashboard.js",
    "action": "flag",
    "rule_module": "code_safety",
    "severity": "high"
  },
  {
    "reason": "innerHTML assignment -- XSS risk, use textContent or SafeDOM (5 occurrences, CWE-79)",
    "type": "js_innerhtml",
    "file": "/home/runner/work/reposystem/reposystem/stateful-artefacts/annotation-layer/annotations.js",
    "action": "flag",
    "rule_module": "code_safety",
    "severity": "high"
  },
  {
    "reason": "innerHTML assignment -- XSS risk, use textContent or SafeDOM (7 occurrences, CWE-79)",
    "type": "js_innerhtml",
    "file": "/home/runner/work/reposystem/reposystem/web/app.js",
    "action": "flag",
    "rule_module": "code_safety",
    "severity": "high"
  },
  {
    "reason": "HTTP URL in code -- use HTTPS for non-localhost (16 occurrences, CWE-319)",
    "type": "js_http_url_in_code",
    "file": "/home/runner/work/reposystem/reposystem/web/app.js",
    "action": "flag",
    "rule_module": "code_safety",
    "severity": "medium"
  }
]

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