agent-architecture-audit
affaan-m/everything-claude-code
Full-stack diagnostic for agent and LLM applications—audits 12-layer stack for wrapper regression, memory pollution, tool failures, and rendering corruption.
What is agent-architecture-audit?
Audits agent and LLM-powered applications across a 12-layer stack to identify failures hidden behind wrapper layers, stale memory, retry loops, and transport mutations. Use this when agent behavior degrades after adding layers, tools are unreliable, or the same model works in a playground but breaks in your wrapper.
- Diagnoses wrapper regression where base model works but wrapper layers degrade behavior
- Detects memory contamination and stale context injection across sessions
- Identifies tool discipline failures—skipped tools, hallucinated execution, missing enforcement
- Finds hidden repair loops and silent fallback agents mutating responses
- Locates rendering and transport-layer corruption between internal generation and user delivery
- Maps failures to specific layers in the 12-layer agent stack with severity ranking
How to install agent-architecture-audit
npx skills add https://github.com/affaan-m/everything-claude-code --skill agent-architecture-auditHow to use agent-architecture-audit
- 1.Define your audit scope: target system, entrypoints, model stack, reported symptoms, time window, and which of the 12 layers apply
- 2.Gather evidence from codebase: source code for agent loop and tool router, logs with session traces, config files with prompts and tool schemas, and memory/knowledge base files
- 3.Search codebase for anti-patterns using grep/rg: tool requirements only in prompts, unvalidated tool execution, hidden LLM calls outside main loop, memory admission without user-correction priority, fallback loops, silent output mutation
- 4.Map each finding to a failure pattern: document symptom, mechanism, source layer, root cause, evidence location, and confidence level
- 5.Rank findings by severity (critical → high → medium → low) and present ordered fix plan prioritizing code-first solutions over prompt changes
Use cases
- Releasing an agent or LLM-powered application to production before shipping
- Debugging agent behavior that degrades after adding prompt layers, tool definitions, or memory systems
- Investigating user reports that 'the agent is getting worse' or tools are flaky
- Comparing behavior between playground/API and your wrapped agent implementation
- Troubleshooting inconsistent behavior across different agents in the same system
- Developers building agent applications or autonomous loops
- Teams shipping features with tool calling, memory, or multi-step workflows
- Engineers debugging agent behavior without clear root cause after 15+ minutes
- Architects designing or refactoring agent wrapper layers and memory systems
agent-architecture-audit FAQ
Use agent-architecture-audit for agent/LLM system diagnostics. Use agent-introspection-debugging for general code debugging, language-specific reviewer agents for code review, security-review for security scanning, and agent-eval for performance benchmarking.
System prompt, session history, long-term memory, distillation, active recall, tool selection, tool execution, tool interpretation, answer shaping, platform rendering, hidden repair loops, and persistence.
When the base model produces correct answers but wrapper layers (prompts, memory, tool routing) make it worse. The model works in a playground but breaks inside your agent.
Check if tool requirements are code-gated (enforced in code logic) rather than only stated in prompt text. If the model can skip a required tool and still answer, it's not properly enforced.
Code-first: gate tool requirements in code, remove hidden repair agents, reduce context duplication, tighten memory admission, reduce rendering mutation, then convert to typed JSON envelopes. Don't start with prompt changes.
Full instructions (SKILL.md)
Source of truth, from affaan-m/everything-claude-code.
name: agent-architecture-audit description: Full-stack diagnostic for agent and LLM applications. Audits the 12-layer agent stack for wrapper regression, memory pollution, tool discipline failures, hidden repair loops, and rendering corruption. Produces severity-ranked findings with code-first fixes. Essential for developers building agent applications, autonomous loops, or any LLM-powered feature. metadata: origin: oh-my-agent-check tools: Read, Write, Edit, Bash, Grep, Glob
Agent Architecture Audit
A diagnostic workflow for agent systems that hide failures behind wrapper layers, stale memory, retry loops, or transport/rendering mutations.
When to Activate
MANDATORY for:
- Releasing any agent or LLM-powered application to production
- Shipping features with tool calling, memory, or multi-step workflows
- Agent behavior degrades after adding wrapper layers
- User reports "the agent is getting worse" or "tools are flaky"
- Same model works in playground but breaks inside your wrapper
- Debugging agent behavior for more than 15 minutes without finding root cause
Especially critical when:
- You've added new prompt layers, tool definitions, or memory systems
- Different agents in your system behave inconsistently
- The model was fine yesterday but is hallucinating today
- You suspect hidden repair/retry loops silently mutating responses
Do not use for:
- General code debugging — use
agent-introspection-debugging - Code review — use language-specific reviewer agents
- Security scanning — use
security-revieworsecurity-review/scan - Agent performance benchmarking — use
agent-eval - Writing new features — use the appropriate workflow skill
The 12-Layer Stack
Every agent system has these layers. Any of them can corrupt the answer:
| # | Layer | What Goes Wrong |
|---|---|---|
| 1 | System prompt | Conflicting instructions, instruction bloat |
| 2 | Session history | Stale context injection from previous turns |
| 3 | Long-term memory | Pollution across sessions, old topics in new conversations |
| 4 | Distillation | Compressed artifacts re-entering as pseudo-facts |
| 5 | Active recall | Redundant re-summary layers wasting context |
| 6 | Tool selection | Wrong tool routing, model skips required tools |
| 7 | Tool execution | Hallucinated execution — claims to call but doesn't |
| 8 | Tool interpretation | Misread or ignored tool output |
| 9 | Answer shaping | Format corruption in final response |
| 10 | Platform rendering | Transport-layer mutation (UI, API, CLI mutates valid answers) |
| 11 | Hidden repair loops | Silent fallback/retry agents running second LLM pass |
| 12 | Persistence | Expired state or cached artifacts reused as live evidence |
Common Failure Patterns
1. Wrapper Regression
The base model produces correct answers, but the wrapper layers make it worse.
Symptoms:
- Model works fine in playground or direct API call, breaks in your agent
- Added a new prompt layer, existing behavior degraded
- Agent sounds confident but is confidently wrong
- "It was working before the last update"
2. Memory Contamination
Old topics leak into new conversations through history, memory retrieval, or distillation.
Symptoms:
- Agent brings up unrelated past topics
- User corrections don't stick (old memory overwrites new)
- Same-session artifacts re-enter as pseudo-facts
- Memory grows without bound, degrading response quality over time
3. Tool Discipline Failure
Tools are declared in the prompt but not enforced in code. The model skips them or hallucinates execution.
Symptoms:
- "Must use tool X" in prompt, but model answers without calling it
- Tool results look correct but were never actually executed
- Different tools fight over the same responsibility
- Model uses tool when it shouldn't, or skips it when it must
4. Rendering/Transport Corruption
The agent's internal answer is correct, but the platform layer mutates it during delivery.
Symptoms:
- Logs show correct answer, user sees broken output
- Markdown rendering, JSON parsing, or streaming fragments corrupt valid responses
- Hidden fallback agent quietly replaces the answer before delivery
- Output differs between terminal and UI
5. Hidden Agent Layers
Silent repair, retry, summarization, or recall agents run without explicit contracts.
Symptoms:
- Output changes between internal generation and user delivery
- "Auto-fix" loops run a second LLM pass the user doesn't know about
- Multiple agents modify the same output without coordination
- Answers get "smoothed" or "corrected" by invisible layers
Audit Workflow
Phase 1: Scope
Define what you're auditing:
- Target system — what agent application?
- Entrypoints — how do users interact with it?
- Model stack — which LLM(s) and providers?
- Symptoms — what does the user report?
- Time window — when did it start?
- Layers to audit — which of the 12 layers apply?
Phase 2: Evidence Collection
Gather evidence from the codebase:
- Source code — agent loop, tool router, memory admission, prompt assembly
- Logs — historical session traces, tool call records
- Config — prompt templates, tool schemas, provider settings
- Memory files — SOPs, knowledge bases, session archives
Use rg to search for anti-patterns:
# Tool requirements expressed only in prompt text (not code)
rg "must.*tool|必须.*工具|required.*call" --type md
# Tool execution without validation
rg "tool_call|toolCall|tool_use" --type py --type ts
# Hidden LLM calls outside main agent loop
rg "completion|chat\.create|messages\.create|llm\.invoke"
# Memory admission without user-correction priority
rg "memory.*admit|long.*term.*update|persist.*memory" --type py --type ts
# Fallback loops that run additional LLM calls
rg "fallback|retry.*llm|repair.*prompt|re-?prompt" --type py --type ts
# Silent output mutation
rg "mutate|rewrite.*response|transform.*output|shap" --type py --type ts
Phase 3: Failure Mapping
For each finding, document:
- Symptom — what the user sees
- Mechanism — how the wrapper causes it
- Source layer — which of the 12 layers
- Root cause — the deepest cause
- Evidence — file:line or log:row reference
- Confidence — 0.0 to 1.0
Phase 4: Fix Strategy
Default fix order (code-first, not prompt-first):
- Code-gate tool requirements — enforce in code, not just prompt text
- Remove or narrow hidden repair agents — make fallback explicit with contracts
- Reduce context duplication — same info through prompt + history + memory + distillation
- Tighten memory admission — user corrections > agent assertions
- Tighten distillation triggers — don't compress what shouldn't be compressed
- Reduce rendering mutation — pass-through, don't transform
- Convert to typed JSON envelopes — structured internal flow, not freeform prose
Severity Model
| Level | Meaning | Action |
|---|---|---|
critical | Agent can confidently produce wrong operational behavior | Fix before next release |
high | Agent frequently degrades correctness or stability | Fix this sprint |
medium | Correctness usually survives but output is fragile or wasteful | Plan for next cycle |
low | Mostly cosmetic or maintainability issues | Backlog |
Output Format
Present findings to the user in this order:
- Severity-ranked findings (most critical first)
- Architecture diagnosis (which layer corrupted what, and why)
- Ordered fix plan (code-first, not prompt-first)
Do not lead with compliments or summaries. If the system is broken, say so directly.
Quick Diagnostic Questions
When auditing an agent system, answer these:
| # | Question | If Yes → |
|---|---|---|
| 1 | Can the model skip a required tool and still answer? | Tool not code-gated |
| 2 | Does old conversation content appear in new turns? | Memory contamination |
| 3 | Is the same info in system prompt AND memory AND history? | Context duplication |
| 4 | Does the platform run a second LLM pass before delivery? | Hidden repair loop |
| 5 | Does the output differ between internal generation and user delivery? | Rendering corruption |
| 6 | Are "must use tool X" rules only in prompt text? | Tool discipline failure |
| 7 | Can the agent's own monologue become persistent memory? | Memory poisoning |
Anti-Patterns to Avoid
- Avoid blaming the model before falsifying wrapper-layer regressions.
- Avoid blaming memory without showing the contamination path.
- Do not let a clean current state erase a dirty historical incident.
- Do not treat markdown prose as a trustworthy internal protocol.
- Do not accept "must use tool" in prompt text when code never enforces it.
- Keep findings direct, evidence-backed, and severity-ranked.
Report Schema
Audits should produce structured reports following this shape:
{
"schema_version": "ecc.agent-architecture-audit.report.v1",
"executive_verdict": {
"overall_health": "high_risk",
"primary_failure_mode": "string",
"most_urgent_fix": "string"
},
"scope": {
"target_name": "string",
"model_stack": ["string"],
"layers_to_audit": ["string"]
},
"findings": [
{
"severity": "critical|high|medium|low",
"title": "string",
"mechanism": "string",
"source_layer": "string",
"root_cause": "string",
"evidence_refs": ["file:line"],
"confidence": 0.0,
"recommended_fix": "string"
}
],
"ordered_fix_plan": [
{ "order": 1, "goal": "string", "why_now": "string", "expected_effect": "string" }
]
}
Related Skills
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