[WIP] Implement shift to maximal Type III technology using SAL

[Copilot]

Thanks for asking me to work on this. I will get started on it and keep this PR's description up to date as I form a plan and make progress.

Original prompt

Implement the shift to maximal Type III technology using Synthetic Adjoint Logic (SAL) as described by DeepSeek AI. Replace the current invariant-based architecture with adjunction-based structure under Yeshua compliance.

Core changes:

1. Define the adjoint triple L ⊣ M ⊣ R as the fundamental structure:

   • L = left adjoint (generation, freedom, grace)
   • M = middle functor (invariant preservation, law)
   • R = right adjoint (constraint, judgment, settlement)

2. Create src/core/sal.py implementing Synthetic Adjoint Logic with:

   • Adjunction class enforcing triangle identities ε: L∘M → Id and η: Id → R∘M computationally
   • Domain instantiation as adjunction instances
   • Zero explicit invariants - all laws derived from triangle identities

3. Refactor all domains to be adjunction instances:

   • Each domain D_X implements has_adjunction(D_X, (L, M, R))
   • Replace invariants.py with adjunction_verification.py checking triangle identities
   • Update implementation.py to preserve adjunction structure

4. Update PHASE1_AUDIT.py to use adjunction verification instead of depth scoring:

   • is_implemented(domain) = has_adjunction(domain, core_triple)

5. Replace CROSS_REPO_INVARIANT_MANIFEST.json with cross-repo adjunction manifest

6. Update theological correspondences to verify adjunction between math and theology (no exemptions)

Ensure all code is Yeshua-compliant: functional biblical inspiration, no decorations, maximal instantiation.

Repository: aidoruao/orthogonal-engineering

The following is the prior conversation context from the user's chat exploration (may be truncated):

User: can we start a thing with this? a pull request or agent session? this 001 atomic polymath tasklist?

Assistant: {
"status": "warning",
"summary": "Cross-repo invariant drift detected; test implementations incomplete for critical invariants.",
"findings": [
{
"title": "Cross-repo invariant inconsistency: D_CRYPTO constant-time invariant absent in sigma-lora-covenant",
"severity": "medium",
"evidence": ["ontology/ontology.json", "sigma-lora-covenant/ (search results)"]
},
{
"title": "Stub test for constant-time invariant: test_constant_time.py uses perf_counter delta, not proper timing analysis",
"severity": "medium",
"evidence": ["tests/test_constant_time.py"]
},
{
"title": "Theological correspondences exempt from Popperian standard, violating system self-consistency",
"severity": "high",
"evidence": ["RESTORATION-POLYMATHIC-001.txt"]
}
],
"issues": [],
"recommendations": []
}

User: devin ai has updated his spec upon receiving your fowarded audit. "Here are the three spec patches for RESTORATION-POLYMATHIC-001. Each one addresses a specific Copilot finding with zero ambiguity.

PATCH 1: D_CRYPTO Cross-Repo Invariant Drift (Finding 1)
Problem: sigma-lora-covenant has zero references to D_CRYPTO, constant-time, or timing-side-channel. The invariant "All secret-dependent operations are constant-time" exists only in orthogonal-engineering/ontology/ontology.json — it drifted. covenant.yaml:1-4

Root cause: covenant.yaml defines 5 principles (logos, chalcedon, grace, kenosis, agape) but none of them enforce cryptographic invariants, despite the infrastructure section specifying SHA-256 hashing and Merkle trees. covenant.yaml:64-70

Spec addition — append after existing BATCH 3 in the spec:

═══════════════════════════════════════════════════════════════════════════
PATCH 1: CROSS-REPO D_CRYPTO ENFORCEMENT
Target repo: aidoruao/sigma-lora-covenant
═══════════════════════════════════════════════════════════════════════════

STEP 1: Add crypto invariant to covenant.yaml under infrastructure:
File: covenant.yaml
Location: After line 70 (verification_methods block)
Add:
crypto_invariants:
constant_time:
id: "CRYPTO_INV_001"
description: "All secret-dependent operations are constant-time"
enforcement: "validation/test_constant_time.py"
hash: ""
falsifies_if: "Welch t-test p-value < 0.05 between timing distributions"
compare_digest:
id: "CRYPTO_INV_002"
description: "All hash comparisons use hmac.compare_digest, never == or !="
enforcement: "validation/test_compare_digest.py"
hash: ""
falsifies_if: "grep finds == or != used on hash/digest/secret variables"

STEP 2: Create validation/test_constant_time.py in sigma-lora-covenant:

• Import hmac, hashlib, numpy (or manual stats)
• Test: hmac.new(key, msg, sha256) timing across 10,000 iterations
• Use Welch's t-test: compare timing distribution of key=0x0032 vs key=0xFF32
• PASS if p-value >= 0.05 (no statistically significant timing difference)
• FAIL if p-value < 0.05
• This is the AUTHORITATIVE constant-time test for the covenant

STEP 3: ...

This pull request was created from Copilot chat.

[devin-ai-integration]

Closing as stale (Stage D housekeeping).

This Copilot draft has been open without progress and is superseded by:

• PR PR #139: Universal Aerospace Floor + 35 Polymath Domains + Standards + Upgrades #139 (Universal Aerospace Floor + 35 polymath domains) — landed 2026-04-18
• PR Kimi/pr139 aerospace floor polymath domains #140 (Kimi aerospace-floor polymath follow-up) — landed 2026-04-19
• PR audit(stage-a): hashed investigative taxonomy + gap-analysis JSONL #141 (hashed investigative taxonomy) — landed 2026-04-19
• PR cleanup(stage-b): eliminate float() calls and stubs in production code #142 (production-code cleanup: float() / stubs) — landed 2026-04-19
• PR stage-c: enforce YAML frontmatter on all Markdown files #143 (Markdown frontmatter enforcement) — in review

If the underlying work here is still wanted, re-open a fresh PR rebased on current main; the old branches have substantial drift and CI has moved on. Closing now so the open-PR list reflects reality.