Codebase Audit

Workflow

Step 1: Define Audit Scope

Ask the user (or determine from context):

1. Target documents: Which docs to audit? (README, CLAUDE.md, JSDoc, test descriptions, API docs)
2. Target codebase: Which directories/files to verify against?
3. Depth: Full audit or focused audit on specific sections?

If not specified, default to: README.md + CLAUDE.md in the project root, verified against the full codebase.

Step 2: Extract Claims

Read each target document and extract every testable claim — any statement that asserts something about the codebase that can be verified as true or false.

Categories of claims:

• Structural: "The project has X directory structure", "Each module contains Y"
• Behavioral: "Function X returns Y when given Z", "The API supports pagination"
• Dependency: "Requires Node.js 18+", "Uses PostgreSQL for storage"
• Configuration: "Set ENV_VAR to enable feature X", "Default port is 3000"
• Process: "Run npm test to execute tests", "Deploy with make deploy"
• Coverage: "All endpoints have integration tests", "100% type coverage"

Record each claim with its source location (file:line).

Ignore non-testable statements: opinions, aspirations, future plans ("we plan to..."), and subjective assessments ("easy to use").

Step 3: Classify by Risk

Assign each claim a risk level based on the consequence of it being false:

Step 4: Select Verification Method

Apply verification methods based on risk level:

Method A: Static Analysis

Search the codebase for evidence that supports or contradicts the claim:

• Use Grep to find relevant code patterns
• Use Glob to verify file structure claims
• Use Read to inspect specific implementations

Method B: Test Evidence + Mirror Test

Check if tests exist that verify the claim, then apply the Mirror Test:

• Does a test for this claim exist?
• Would the test still pass if the claimed behavior were removed? (Mirror Test)
• Does the test assert on the specific behavior claimed, or merely on a related side effect?

Method C: Runtime Probe

For Critical and High risk claims, attempt to verify through execution:

• Run commands the docs claim should work
• Check that claimed endpoints exist
• Verify that configuration options have the documented effect

Method D: Dependency Trace

Trace the dependency chain for claims about integrations:

• Is the claimed dependency in package.json / requirements.txt / go.mod?
• Is it actually imported and used, or just listed?
• Does the version match what's documented?

Method E: Mutation Test (Critical only)

For the highest-risk claims, consider what would happen if the claim were false:

• If "all inputs are sanitized" is false, where would unsanitized input enter?
• If "authentication is required" is false, which routes are unprotected?

Step 5: Execute (Falsification-First)

For each claim, search for counter-evidence first:

1. Assume the claim is FALSE
2. Search for evidence that contradicts it
3. If counter-evidence found: the claim is weakened or falsified
4. If no counter-evidence found: search for supporting evidence
5. If supporting evidence found: the claim is verified
6. If neither found: the claim is unfalsifiable with available tools

This order matters. Starting with supporting evidence creates confirmation bias.

Step 6: Assign Verdicts

Each claim receives one of these verdicts (aligned with critical-research verdict system):

Step 7: Generate Remediation Prompts

For every FALSE or PARTIALLY VERIFIED claim, generate a specific remediation:

CLAIM: [quoted claim] (source: file:line)
VERDICT: FALSE
EVIDENCE: [what was found]
REMEDIATION: [specific action — either fix the code or fix the docs]

Step 8: Synthesize Report

Compile findings into the output format below.

Output Format

# Codebase Audit Report

## Audit Scope
- **Documents audited**: [list with file paths]
- **Codebase scope**: [directories/files checked]
- **Date**: [audit date]

## Documentation Accuracy Score
- **Total claims extracted**: X
- **VERIFIED**: Y (Z%)
- **PARTIALLY VERIFIED**: A (B%)
- **UNVERIFIED**: C (D%)
- **FALSE**: E (F%)
- **UNFALSIFIABLE**: G (H%)
- **Overall accuracy**: Y / (X - G) = Z% (excluding unfalsifiable)

## Critical + High Risk Findings

### FALSE Claims
| # | Claim | Source | Evidence | Remediation |
|---|-------|--------|----------|-------------|
| 1 | "..." | file:line | [what was found] | [fix code / fix docs] |

### PARTIALLY VERIFIED Claims
| # | Claim | Source | Scope Limitation | Remediation |
|---|-------|--------|------------------|-------------|
| 1 | "..." | file:line | [true for X, false for Y] | [update docs] |

## Medium + Low Risk Findings

### FALSE Claims
| # | Claim | Source | Evidence | Remediation |
|---|-------|--------|----------|-------------|

### PARTIALLY VERIFIED Claims
| # | Claim | Source | Scope Limitation | Remediation |
|---|-------|--------|------------------|-------------|

## UNVERIFIED Claims (Manual Review Needed)
| # | Claim | Source | Why Unverifiable |
|---|-------|--------|-----------------|

## UNFALSIFIABLE Claims (Docs Need Rewriting)
| # | Claim | Source | Suggested Rewrite |
|---|-------|--------|-------------------|

## Verified Claims (Passing)
[List of claims that survived falsification, grouped by document]

## Methodology Notes
- [Any limitations of this audit]
- [What could not be checked and why]
- [Assumptions made during verification]

Examples

Example 1: README Audit

User: "Audit the README against the actual codebase"

Step 1 → Scope: README.md, verified against full repo
Step 2 → Extract 23 claims (structure, setup, API, testing)
Step 3 → Classify: 3 Critical, 7 High, 8 Medium, 5 Low
Step 4 → Apply methods A+B for all, C+D for Critical+High, E for Critical
Step 5 → Falsification-first execution
Step 6 → Verdicts: 15 VERIFIED, 3 PARTIALLY VERIFIED, 2 FALSE, 1 UNVERIFIED, 2 UNFALSIFIABLE
Step 7 → Remediation for 5 non-passing claims
Step 8 → Report with 87% accuracy score

Example 2: API Documentation Audit

User: "Check if our API docs match the actual endpoints"

Step 1 → Scope: docs/api.md, verified against src/routes/
Step 2 → Extract 45 claims (endpoints, params, responses, auth)
Step 3 → Classify: 8 Critical (auth claims), 15 High (endpoint behavior), 22 Medium
Step 4 → Methods A+B+C+D for Critical+High, A+B for Medium
Step 5 → Find 3 endpoints documented but not implemented, 2 undocumented endpoints
Step 6 → 5 FALSE claims, rest VERIFIED
Step 7 → Remediation: add missing endpoints or remove from docs
Step 8 → Report with 89% accuracy score

Error Handling

1. No documentation found: Inform user and suggest which files could serve as documentation. Offer to audit code comments/JSDoc instead.
2. No testable claims extracted: The documentation may be purely aspirational. Report this explicitly and suggest converting statements to testable claims.
3. Codebase too large to fully verify: Prioritize Critical and High risk claims. State what was not checked in Methodology Notes.
4. Ambiguous claims: Classify as UNFALSIFIABLE and suggest a rewrite that would make the claim testable.
5. Runtime verification fails: Note the failure, mark claim as UNVERIFIED, include the error in the report.

Security Considerations

• Read-only by default: This skill reads code and docs but does not modify them. Runtime probes (Method C) execute only documented commands (e.g., npm test) and should be confirmed with the user before running.
• No credential exposure: Never include secrets, tokens, or env var values in the audit report. Report their existence/absence, not their content.
• Source validation: When auditing claims about external URLs or APIs, verify the domain is legitimate before fetching.
• Scope containment: Only audit files within the specified project directory. Do not follow symlinks outside the project root without user confirmation.

Constraints

• Only verify claims against code that exists in the repository. Do not speculate about runtime behavior unless executing a Runtime Probe (Method C).
• Do not modify any files. This is a read-only audit.
• Do not fabricate evidence. If you cannot verify a claim, mark it UNVERIFIED — not VERIFIED.
• Falsification search must precede corroboration search for every claim. No exceptions.
• Report all findings, including verified claims. A clean bill of health is also valuable information.

Related Skills

• critical-research — Uses the same falsification-first methodology for web research. Verdict system aligned.
• code-review-gemini — Complements audits with code quality review (includes adversarial pass).
• code-review-claude — Quick code quality checks (includes adversarial quick check).
• completion-gate — Applies similar rigor to completion claims (includes adversarial self-verification).
• assumption-extractor — Complementary: codebase-audit verifies doc claims against code; assumption-extractor surfaces implicit assumptions in design docs that may not match implementation.
• research-synthesis — Downstream: combines codebase-audit findings with other research outputs into decision documents.