Systematic debugging

Systematic Debugging

Overview

Core principle: ALWAYS find root cause before attempting fixes. Symptom fixes are failure.

Violating the letter of this process is violating the spirit of debugging.

The Iron Law

NO FIXES WITHOUT ROOT CAUSE INVESTIGATION FIRST

If you haven't completed Phase 1, you cannot propose fixes.

When to Use

Use for ANY technical issue:

• Test failures
• Bugs in production
• Unexpected behavior
• Performance problems
• Build failures
• Integration issues

Use this ESPECIALLY when:

• Under time pressure (emergencies make guessing tempting)
• "Just one quick fix" seems obvious
• You've already tried multiple fixes
• Previous fix didn't work
• You don't fully understand the issue

Don't skip when:

• Issue seems simple (simple bugs have root causes too)
• You're in a hurry (rushing guarantees rework)
• Manager wants it fixed NOW (systematic is faster than thrashing)

The Four Phases

You MUST complete each phase before proceeding to the next.

Phase 1: Root Cause Investigation

BEFORE attempting ANY fix:

1. Read Error Messages Carefully

   • Don't skip past errors or warnings
   • They often contain the exact solution
   • Read stack traces completely
   • Note line numbers, file paths, error codes

2. Reproduce Consistently

   • Can you trigger it reliably?
   • What are the exact steps?
   • Does it happen every time?
   • If not reproducible → gather more data, don't guess

3. Check Recent Changes

   • What changed that could cause this?
   • Git diff, recent commits
   • New dependencies, config changes
   • Environmental differences
   • For workflow-level issues (blocked beads, stuck execution): bd ready --explain shows dependency reasoning
   • Check the knowledge store for this symptom before investigating further: bd memories <symptom-keywords> (prior root-cause/lesson memories) and bd list --label <topic> --status all (+ bd search "<symptom>" --status all for decision/design knowledge-beads; error strings are body terms: add --desc-contains "<error-string>"; >10 hits: narrow the query, never triage truncated titles). Then read — hits are pointers, not knowledge: bd show <ids> every plausibly-matching prior decision/design, and bd recall <key> every plausibly-matching memory (bd memories prints truncated previews) — full bodies, before investigating further. 0 relevant does not mean none exist — re-angle the query once before emitting KB check: none. Emit KB check: N hits, M read + a one-line disposition each. If a prior root cause or decision already covers this, use it — don't re-debug something already understood.

4. Gather Evidence in Multi-Component Systems

   WHEN system has multiple components (CI → build → signing, API → service → database):

   BEFORE proposing fixes, add diagnostic instrumentation:

   For EACH component boundary:
     - Log what data enters component
     - Log what data exits component
     - Verify environment/config propagation
     - Check state at each layer
   
   Run once to gather evidence showing WHERE it breaks
   THEN analyze evidence to identify failing component
   THEN investigate that specific component
   

   Example (multi-layer system):

   # Layer 1: Workflow
   echo "=== Secrets available in workflow: ==="
   echo "IDENTITY: ${IDENTITY:+SET}${IDENTITY:-UNSET}"
   
   # Layer 2: Build script
   echo "=== Env vars in build script: ==="
   env | grep IDENTITY || echo "IDENTITY not in environment"
   
   # Layer 3: Signing script
   echo "=== Keychain state: ==="
   security list-keychains
   security find-identity -v
   
   # Layer 4: Actual signing
   codesign --sign "$IDENTITY" --verbose=4 "$APP"
   

   This reveals: Which layer fails (secrets → workflow ✓, workflow → build ✗)

5. Trace Data Flow

   WHEN error is deep in call stack:

   See root-cause-tracing.md in this directory for the complete backward tracing technique.

   Quick version:

   • Where does bad value originate?
   • What called this with bad value?
   • Keep tracing up until you find the source
   • Fix at source, not at symptom

Phase 2: Pattern Analysis

Find the pattern before fixing:

1. Find Working Examples

   • Locate similar working code in same codebase
   • What works that's similar to what's broken?

2. Compare Against References

   • If implementing pattern, read reference implementation COMPLETELY
   • Don't skim - read every line
   • Understand the pattern fully before applying

3. Identify Differences

   • What's different between working and broken?
   • List every difference, however small
   • Don't assume "that can't matter"

4. Understand Dependencies

   • What other components does this need?
   • What settings, config, environment?
   • What assumptions does it make?

Phase 3: Hypothesis and Testing

Scientific method:

1. Form Single Hypothesis

   • State clearly: "I think X is the root cause because Y"
   • Write it down
   • Be specific, not vague

2. Test Minimally

   • Make the SMALLEST possible change to test hypothesis
   • One variable at a time
   • Don't fix multiple things at once

3. Verify Before Continuing

   • Did it work? Yes → Phase 4
   • Didn't work? Form NEW hypothesis
   • DON'T add more fixes on top

4. When You Don't Know

   • Say "I don't understand X"
   • Don't pretend to know
   • Ask for help
   • Research more

Phase 4: Implementation

Fix the root cause, not the symptom:

1. Create Failing Test Case

   • Simplest possible reproduction
   • Automated test if possible
   • One-off test script if no framework
   • MUST have before fixing
   • Use the beads-superpowers:test-driven-development skill for writing proper failing tests

2. Implement Single Fix

   • Address the root cause identified
   • ONE change at a time
   • No "while I'm here" improvements
   • No bundled refactoring

3. Verify Fix

   • Test passes now?
   • No other tests broken?
   • Issue actually resolved?
   • Before claiming the fix works, run the beads-superpowers:verification-before-completion skill — evidence before claims.

4. If Fix Doesn't Work

   • STOP
   • Count: How many fixes have you tried?
   • If < 3: Return to Phase 1, re-analyze with new information
   • If ≥ 3: STOP and question the architecture (step 5 below)
   • DON'T attempt Fix #4 without architectural discussion

5. If 3+ Fixes Failed: Question Architecture

   Pattern indicating architectural problem:

   • Each fix reveals new shared state/coupling/problem in different place
   • Fixes require "massive refactoring" to implement
   • Each fix creates new symptoms elsewhere

   STOP and question fundamentals:

   • Is this pattern fundamentally sound?
   • Are we "sticking with it through sheer inertia"?
   • Should we refactor architecture vs. continue fixing symptoms?

   Discuss with your human partner before attempting more fixes

   This is NOT a failed hypothesis - this is a wrong architecture.

After the work is settled, present the Capture gate — mandatory every time; Skip is the default (most work leaves nothing worth keeping):

{
  "questions": [{
    "question": "Worth keeping anything from this?",
    "header": "Capture",
    "options": [
      {"label": "Skip", "description": "Nothing here outlasts the work itself (usually the case)"},
      {"label": "Record the decision", "description": "Pick this if the choice is hard to undo, non-obvious in hindsight, and had real trade-offs — so future-you knows why"},
      {"label": "Remember the lesson", "description": "A specific, evidence-backed lesson worth reusing in later sessions"},
      {"label": "Both", "description": "A lasting decision and a lesson worth reusing"}
    ],
    "multiSelect": false
  }]
}

Route on the answer. Record the decision / Both → this writes an ADR, so first confirm it clears the bar (hard-to-reverse AND surprising-without-context AND genuine trade-off); if it doesn't, say so and capture it as a memory instead (the lighter record) — unless the user confirms they want the full ADR. Write the ADR (docs/decisions/ADR-NNNN-<kebab>.md, sections Context/Decision/Rationale/Consequences, update docs/decisions/INDEX.md), then file a type=decision knowledge-bead so the decision stays retrievable: printf '%s' "<distilled 0.5-2.5KB decision summary — context, decision, consequences>" | bd create "<one-line summary>" -t decision -l kb,adr-process,<topic> --defer 2099-01-01 --metadata "$(jq -nc --arg d "<ADR-path>" '{doc:$d}')" --body-file - --silent (run the secret/PII scan on the summary first — flag for removal, never write a secret into a bead). Remember the lesson / Both → bd remember "<kind>: <durable, evidence-backed insight>". Skip → nothing.

Red Flags - STOP and Follow Process

If you catch yourself thinking:

• "Quick fix for now, investigate later"
• "Just try changing X and see if it works"
• "Add multiple changes, run tests"
• "Skip the test, I'll manually verify"
• "It's probably X, let me fix that"
• "I don't fully understand but this might work"
• "Pattern says X but I'll adapt it differently"
• "Here are the main problems: [lists fixes without investigation]"
• Proposing solutions before tracing data flow
• "One more fix attempt" (when already tried 2+)
• Each fix reveals new problem in different place

ALL of these mean: STOP. Return to Phase 1.

If 3+ fixes failed: Question the architecture (see Phase 4.5)

your human partner's Signals You're Doing It Wrong

Watch for these redirections:

• "Is that not happening?" - You assumed without verifying
• "Will it show us...?" - You should have added evidence gathering
• "Stop guessing" - You're proposing fixes without understanding
• "Ultra-think this" - Question fundamentals, not just symptoms
• "We're stuck?" (frustrated) - Your approach isn't working

When you see these: STOP. Return to Phase 1.

Common Rationalizations

Excuse	Reality
"Issue is simple, don't need process"	Simple issues have root causes too. Process is fast for simple bugs.
"Emergency, no time for process"	Systematic debugging is FASTER than guess-and-check thrashing.
"Just try this first, then investigate"	First fix sets the pattern. Do it right from the start.
"I'll write test after confirming fix works"	Untested fixes don't stick. Test first proves it.
"Multiple fixes at once saves time"	Can't isolate what worked. Causes new bugs.
"Reference too long, I'll adapt the pattern"	Partial understanding guarantees bugs. Read it completely.
"I see the problem, let me fix it"	Seeing symptoms ≠ understanding root cause.
"One more fix attempt" (after 2+ failures)	3+ failures = architectural problem. Question pattern, don't fix again.
"Quick patch / retry-timeout wrapper is fine"	A fix that papers over the defect, weakens a security control, or accepts material risk is a symptom fix — forbidden (Production-Grade Doctrine).

Quick Reference

Phase	Key Activities	Success Criteria
1. Root Cause	Read errors, reproduce, check changes, gather evidence	Understand WHAT and WHY
2. Pattern	Find working examples, compare	Identify differences
3. Hypothesis	Form theory, test minimally	Confirmed or new hypothesis
4. Implementation	Create test, fix, verify	Bug resolved, tests pass

When Process Reveals "No Root Cause"

If systematic investigation reveals issue is truly environmental, timing-dependent, or external:

1. You've completed the process
2. Document what you investigated
3. Implement appropriate handling (retry, timeout, error message)
4. Add monitoring/logging for future investigation

But: 95% of "no root cause" cases are incomplete investigation.

Supporting Techniques

These techniques are part of systematic debugging and available in this directory:

• root-cause-tracing.md - Trace bugs backward through call stack to find original trigger
• defense-in-depth.md - Add validation at multiple layers after finding root cause
• condition-based-waiting.md - Replace arbitrary timeouts with condition polling

Integration

Invoked by: Any bug, test failure, or unexpected behaviour. Interrupt skill — fires regardless of workflow position.

Called by: subagent-driven-development — on integration test failures after batch merge.

Pairs with:

• test-driven-development — Phase 4 creates a failing test to prove the root cause, then follows TDD to fix it.
• verification-before-completion — verify the fix before claiming success.