Vulnerability Analysis
Every vulnerability you miss is one an attacker finds first. Systematic source
auditing traces untrusted data from source to sink, evaluates every
sanitizer for bypass, and questions each trust-boundary assumption. This skill is
the router; depth lives in references/, and every technique cluster is backed
by a runnable tool in scripts/.
When to Activate
- Auditing any codebase (white/grey box) for security vulnerabilities
- Writing/driving CodeQL queries, Semgrep taint rules, or Joern CPGQL flows
- Tracing injection, deserialization, prototype-pollution, or memory-safety paths
- Reviewing auth/authorization (IDOR/BOLA), cryptography, or concurrency (TOCTOU)
- Triaging dependency CVEs and hunting malicious/compromised packages (SCA)
- Variant hunting — generalizing one finding into a codebase-wide pattern
Technique Map
| Technique |
ATT&CK |
CWE |
Reference |
Script |
| Taint analysis (source/sink/sanitizer modeling) |
T1190 |
CWE-20 |
references/taint-engines-static-analysis.md |
scripts/taint_trace.py |
| CodeQL/Semgrep/Joern engine orchestration + merge |
T1190 |
CWE-20 |
references/taint-engines-static-analysis.md |
scripts/sast_runner.py, scripts/joern_taint.sc |
| SQL injection (raw/ORM/identifier/2nd-order/NoSQL) |
T1190 |
CWE-89 |
references/injection-source-patterns.md |
scripts/taint_trace.py |
| OS command / argument injection |
T1059 |
CWE-78 / CWE-88 |
references/injection-source-patterns.md |
scripts/taint_trace.py |
| Server-side template injection |
T1190 |
CWE-1336 |
references/injection-source-patterns.md |
scripts/taint_trace.py |
| Path traversal |
T1083 |
CWE-22 |
references/injection-source-patterns.md |
scripts/taint_trace.py |
| SSRF (tainted server-side URL) |
T1190 |
CWE-918 |
references/injection-source-patterns.md |
scripts/taint_trace.py |
| Integer overflow -> heap/stack overflow |
T1203 |
CWE-190 / CWE-787 |
references/memory-safety-c-cpp.md |
scripts/joern_taint.sc |
| Use-after-free / double-free |
T1203 |
CWE-416 / CWE-415 |
references/memory-safety-c-cpp.md |
scripts/joern_taint.sc |
| Unbounded copy / NULL deref |
T1203 |
CWE-120 / CWE-476 |
references/memory-safety-c-cpp.md |
scripts/joern_taint.sc |
| Insecure deserialization + gadget preconditions |
T1059 |
CWE-502 |
references/deserialization-prototype-pollution.md |
scripts/deser_gadget_scan.py |
| Prototype pollution -> gadget -> RCE |
T1059.007 |
CWE-1321 |
references/deserialization-prototype-pollution.md |
scripts/deser_gadget_scan.py |
| Hardcoded secrets / high-entropy literals |
T1552.001 |
CWE-798 / CWE-321 |
references/secrets-crypto-authz-concurrency.md |
scripts/secret_crypto_audit.py |
| Weak / misused cryptography |
T1600 |
CWE-327 / CWE-328 / CWE-330 / CWE-347 |
references/secrets-crypto-authz-concurrency.md |
scripts/secret_crypto_audit.py |
| Broken authorization / IDOR / BOLA |
T1190 |
CWE-639 / CWE-862 |
references/secrets-crypto-authz-concurrency.md |
scripts/secret_crypto_audit.py |
| TOCTOU / race condition |
T1190 |
CWE-367 / CWE-362 |
references/secrets-crypto-authz-concurrency.md |
scripts/secret_crypto_audit.py |
| Known-CVE dependency (SCA) |
T1195.001 |
CWE-1395 / CWE-1104 |
references/supply-chain-dependency-audit.md |
scripts/dep_audit.py |
| Malicious package / install worm / typosquat |
T1195.002 |
CWE-506 / CWE-829 / CWE-1357 |
references/supply-chain-dependency-audit.md |
scripts/dep_audit.py |
| Variant hunting — one finding -> all siblings, root-cause clustered |
T1190 |
CWE-20 |
references/variant-hunting.md |
scripts/variant_hunt.py |
| Path feasibility — branch guards -> tri-state SAT/UNSAT (Z3 optional) |
T1190 |
CWE-20 |
references/taint-engines-static-analysis.md |
scripts/path_conditions.py |
| Evidence grounding + FP gate (structured proof, EVD citations) |
T1190 |
CWE-20 |
references/finding-validation-runtime.md |
scripts/validate_findings.py, scripts/evidence_kit.py |
| Runtime reachability confirmation (Frida sink-executed) |
T1190 |
CWE-20 |
references/dynamic-instrumentation.md |
scripts/merge_runtime_evidence.py |
Quick Start
# 0. Intake from recon-osint: languages, frameworks, trust boundaries, entry points.
# 1. Fast triage — rank files by unsanitized source->sink flows (heuristic, multi-lang)
python3 scripts/taint_trace.py trace ./src --lang py,js,php,java --json triage.json
python3 scripts/taint_trace.py config --lang py > seed.semgrep.yml # seed a real rule
# 2. Deep interprocedural — drive the real engines, then merge into one ranked list
python3 scripts/sast_runner.py semgrep --src ./src --config p/owasp-top-ten --pro --out sg.sarif
python3 scripts/sast_runner.py codeql --src ./src --lang python \
--suite codeql/python-queries:codeql-suites/python-security-extended.qls --out cq.sarif
python3 scripts/sast_runner.py joern --src ./src --script scripts/joern_taint.sc --out joern.json
python3 scripts/sast_runner.py merge sg.sarif cq.sarif joern.json --out merged.json --top 50
# 3. Class-specific deep passes
python3 scripts/deser_gadget_scan.py all ./src --json deser.json # deser sinks + gadget libs
python3 scripts/secret_crypto_audit.py all ./src --json sca.json # secrets+crypto+authz+TOCTOU
python3 scripts/dep_audit.py all ./repo --json dep.json # CVE SCA + worm/typosquat
trufflehog filesystem ./src --only-verified # confirm LIVE secrets
# 4. Exploitability gate (per finding): reachable? controllable? real impact? sanitizer real?
# -> write confirmed issues to templates/exploit/findings/ with
# severity, CWE, CVSS, taint path, PoC, evidence, ATT&CK ID, remediation.
python3 scripts/evidence_kit.py verify --store evidence.json # re-hash every artifact
python3 scripts/validate_findings.py --findings findings.json \
--evidence ./evidence --evidence-store evidence.json --strict # tier + EVD-citation gate
# 5. After a CONFIRMED finding: hunt every sibling, then prune false-positive paths
python3 scripts/variant_hunt.py ./src --seed-finding findings.json --lang py,js --json variants.json
python3 scripts/taint_trace.py trace ./src --lang py --json trace.json # trace carries branch guards
python3 scripts/path_conditions.py --trace trace.json --json feasibility.json # Z3 prune (tri-state)
python3 scripts/merge_runtime_evidence.py --events events.jsonl --findings findings.json --out merged.json
OPSEC & Detection (summary)
| Technique |
Telemetry / IOC |
Detection (Sigma/EDR) |
OPSEC note |
| SAST engine runs |
codeql database create, semgrep --sarif, joern-parse process trees; large codeql-db//cpg.bin |
CI process-creation Sigma (informational) |
offline & silent; CodeQL --command runs target build -> sandbox hostile repos; purge DBs/SARIF on teardown |
| Injection (SQLi/cmdi/SSTI/SSRF) |
SQL keywords/SLEEP, web svc spawning sh/curl, template engine errors, OOB DNS |
webserver regex + EDR child-shell Sigma |
source review is noiseless; validate with time-based/DNS-OOB, never --dump |
| Memory safety (C/C++) |
SIGSEGV/SIGABRT, glibc corrupted/double free, ASan reports |
auditd ANOM_ABEND Sigma; EDR RWX/W^X alerts |
CPG review silent; fuzz a local copy in a container, purge cores (may hold secrets) |
| Deserialization / proto-pollution |
Java rO0AB/.NET AAEAAAD///// in bodies; JVM->LDAP/RMI; POST / w/ Next-Action (CVE-2025-55182) |
egress Sigma to 389/636/1099/1389; body-marker rules |
prove gadget chain exists; id/DNS callback not reverse shell; proto-pollution is global -> revert |
| Secrets / crypto / authz / TOCTOU |
AKIA*/ghp_* patterns; alg:none; sequential-id 200s; symlink-race auditd |
secret-scanning push protection; symlink/PATH auditd |
secret verification makes a logged provider API call -> only in scope; read one record for IDOR/TOCTOU evidence |
| Supply chain (SCA / worm) |
install hook spawning shell/net; bundle.js/setup_bun.js; new public Shai-Hulud repo |
install-script process-creation Sigma; agentless SBOM lookup |
never npm install a suspect tree; --ignore-scripts in a disposable container; treat a compromised dep as full host compromise |
Deep Dives
- references/taint-engines-static-analysis.md — taint theory + propagation rules;
Semgrep (taint mode, Pro interfile, Opengrep), CodeQL modular dataflow API,
Joern CPG/
reachableBy; engine orchestration + multi-tool merge; CPG+LLM (2025).
- references/injection-source-patterns.md — source-code shapes of SQLi (incl.
identifier/ORDER BY/2nd-order/NoSQL), OS command & argument injection, SSTI,
path traversal, SSRF; per-language safe/vuln pairs; Joern/Semgrep confirmation.
- references/memory-safety-c-cpp.md — integer overflow->overflow, UAF/double-free,
unbounded copy, NULL deref; the 2025 libxml2 CVE cluster; ASan/UBSan + fuzzing
confirmation;
unsafe Rust surface.
- references/deserialization-prototype-pollution.md — CWE-502 sinks + gadget
preconditions (ysoserial/phpggc/ysoserial.net), JS prototype pollution->RCE;
React2Shell CVE-2025-55182, Tomcat CVE-2025-24813, lodash CVE-2025-13465, Silent
Spring.
- references/secrets-crypto-authz-concurrency.md — hardcoded secrets (gitleaks/
trufflehog/Kingfisher), weak crypto, IDOR/BOLA, TOCTOU/race; LLM-augmented
secret detection (2025).
- references/supply-chain-dependency-audit.md — OSV/SCA, malicious-package & install
worm heuristics, typosquats; Shai-Hulud 1.0/2.0/Mini (CVE-2026-45321), the SLSA
provenance-bypass lesson.
- references/variant-hunting.md — HUNT protocol: one confirmed finding -> tree-wide sibling
sweep, same-function taint qualification, root-cause clustering (copy-paste/shared-util/
framework-misuse) to decide one-fix-or-many; backed by
variant_hunt.py. Pairs with
evidence_kit.py (re-verifiable EVD evidence), path_conditions.py (Z3 path-prune, tri-state),
and merge_runtime_evidence.py (Frida runtime sink confirmation).
1---2name: vulnerability-analysis3description: Use when auditing source code for vulnerabilities — drive CodeQL/Semgrep/Joern to taint untrusted data source-to-sink across injection, memory safety, deserialization/prototype-pollution, secrets/crypto/authz/race, and supply-chain risks4---56# Vulnerability Analysis78Every vulnerability you miss is one an attacker finds first. Systematic source9auditing traces untrusted data from **source** to **sink**, evaluates every10sanitizer for bypass, and questions each trust-boundary assumption. This skill is11the router; depth lives in `references/`, and every technique cluster is backed12by a runnable tool in `scripts/`.1314## When to Activate1516- Auditing any codebase (white/grey box) for security vulnerabilities17- Writing/driving CodeQL queries, Semgrep taint rules, or Joern CPGQL flows18- Tracing injection, deserialization, prototype-pollution, or memory-safety paths19- Reviewing auth/authorization (IDOR/BOLA), cryptography, or concurrency (TOCTOU)20- Triaging dependency CVEs and hunting malicious/compromised packages (SCA)21- Variant hunting — generalizing one finding into a codebase-wide pattern2223## Technique Map2425| Technique | ATT&CK | CWE | Reference | Script |26|-----------|--------|-----|-----------|--------|27| Taint analysis (source/sink/sanitizer modeling) | T1190 | CWE-20 | references/taint-engines-static-analysis.md | scripts/taint_trace.py |28| CodeQL/Semgrep/Joern engine orchestration + merge | T1190 | CWE-20 | references/taint-engines-static-analysis.md | scripts/sast_runner.py, scripts/joern_taint.sc |29| SQL injection (raw/ORM/identifier/2nd-order/NoSQL) | T1190 | CWE-89 | references/injection-source-patterns.md | scripts/taint_trace.py |30| OS command / argument injection | T1059 | CWE-78 / CWE-88 | references/injection-source-patterns.md | scripts/taint_trace.py |31| Server-side template injection | T1190 | CWE-1336 | references/injection-source-patterns.md | scripts/taint_trace.py |32| Path traversal | T1083 | CWE-22 | references/injection-source-patterns.md | scripts/taint_trace.py |33| SSRF (tainted server-side URL) | T1190 | CWE-918 | references/injection-source-patterns.md | scripts/taint_trace.py |34| Integer overflow -> heap/stack overflow | T1203 | CWE-190 / CWE-787 | references/memory-safety-c-cpp.md | scripts/joern_taint.sc |35| Use-after-free / double-free | T1203 | CWE-416 / CWE-415 | references/memory-safety-c-cpp.md | scripts/joern_taint.sc |36| Unbounded copy / NULL deref | T1203 | CWE-120 / CWE-476 | references/memory-safety-c-cpp.md | scripts/joern_taint.sc |37| Insecure deserialization + gadget preconditions | T1059 | CWE-502 | references/deserialization-prototype-pollution.md | scripts/deser_gadget_scan.py |38| Prototype pollution -> gadget -> RCE | T1059.007 | CWE-1321 | references/deserialization-prototype-pollution.md | scripts/deser_gadget_scan.py |39| Hardcoded secrets / high-entropy literals | T1552.001 | CWE-798 / CWE-321 | references/secrets-crypto-authz-concurrency.md | scripts/secret_crypto_audit.py |40| Weak / misused cryptography | T1600 | CWE-327 / CWE-328 / CWE-330 / CWE-347 | references/secrets-crypto-authz-concurrency.md | scripts/secret_crypto_audit.py |41| Broken authorization / IDOR / BOLA | T1190 | CWE-639 / CWE-862 | references/secrets-crypto-authz-concurrency.md | scripts/secret_crypto_audit.py |42| TOCTOU / race condition | T1190 | CWE-367 / CWE-362 | references/secrets-crypto-authz-concurrency.md | scripts/secret_crypto_audit.py |43| Known-CVE dependency (SCA) | T1195.001 | CWE-1395 / CWE-1104 | references/supply-chain-dependency-audit.md | scripts/dep_audit.py |44| Malicious package / install worm / typosquat | T1195.002 | CWE-506 / CWE-829 / CWE-1357 | references/supply-chain-dependency-audit.md | scripts/dep_audit.py |45| Variant hunting — one finding -> all siblings, root-cause clustered | T1190 | CWE-20 | references/variant-hunting.md | scripts/variant_hunt.py |46| Path feasibility — branch guards -> tri-state SAT/UNSAT (Z3 optional) | T1190 | CWE-20 | references/taint-engines-static-analysis.md | scripts/path_conditions.py |47| Evidence grounding + FP gate (structured proof, EVD citations) | T1190 | CWE-20 | references/finding-validation-runtime.md | scripts/validate_findings.py, scripts/evidence_kit.py |48| Runtime reachability confirmation (Frida sink-executed) | T1190 | CWE-20 | references/dynamic-instrumentation.md | scripts/merge_runtime_evidence.py |4950## Quick Start5152```bash53# 0. Intake from recon-osint: languages, frameworks, trust boundaries, entry points.5455# 1. Fast triage — rank files by unsanitized source->sink flows (heuristic, multi-lang)56python3 scripts/taint_trace.py trace ./src --lang py,js,php,java --json triage.json57python3 scripts/taint_trace.py config --lang py > seed.semgrep.yml # seed a real rule5859# 2. Deep interprocedural — drive the real engines, then merge into one ranked list60python3 scripts/sast_runner.py semgrep --src ./src --config p/owasp-top-ten --pro --out sg.sarif61python3 scripts/sast_runner.py codeql --src ./src --lang python \62 --suite codeql/python-queries:codeql-suites/python-security-extended.qls --out cq.sarif63python3 scripts/sast_runner.py joern --src ./src --script scripts/joern_taint.sc --out joern.json64python3 scripts/sast_runner.py merge sg.sarif cq.sarif joern.json --out merged.json --top 506566# 3. Class-specific deep passes67python3 scripts/deser_gadget_scan.py all ./src --json deser.json # deser sinks + gadget libs68python3 scripts/secret_crypto_audit.py all ./src --json sca.json # secrets+crypto+authz+TOCTOU69python3 scripts/dep_audit.py all ./repo --json dep.json # CVE SCA + worm/typosquat70trufflehog filesystem ./src --only-verified # confirm LIVE secrets7172# 4. Exploitability gate (per finding): reachable? controllable? real impact? sanitizer real?73# -> write confirmed issues to templates/exploit/findings/ with74# severity, CWE, CVSS, taint path, PoC, evidence, ATT&CK ID, remediation.75python3 scripts/evidence_kit.py verify --store evidence.json # re-hash every artifact76python3 scripts/validate_findings.py --findings findings.json \77 --evidence ./evidence --evidence-store evidence.json --strict # tier + EVD-citation gate7879# 5. After a CONFIRMED finding: hunt every sibling, then prune false-positive paths80python3 scripts/variant_hunt.py ./src --seed-finding findings.json --lang py,js --json variants.json81python3 scripts/taint_trace.py trace ./src --lang py --json trace.json # trace carries branch guards82python3 scripts/path_conditions.py --trace trace.json --json feasibility.json # Z3 prune (tri-state)83python3 scripts/merge_runtime_evidence.py --events events.jsonl --findings findings.json --out merged.json84```8586## OPSEC & Detection (summary)8788| Technique | Telemetry / IOC | Detection (Sigma/EDR) | OPSEC note |89|-----------|-----------------|------------------------|------------|90| SAST engine runs | `codeql database create`, `semgrep --sarif`, `joern-parse` process trees; large `codeql-db/`/`cpg.bin` | CI process-creation Sigma (informational) | offline & silent; CodeQL `--command` runs target build -> sandbox hostile repos; purge DBs/SARIF on teardown |91| Injection (SQLi/cmdi/SSTI/SSRF) | SQL keywords/`SLEEP`, web svc spawning `sh/curl`, template engine errors, OOB DNS | webserver regex + EDR child-shell Sigma | source review is noiseless; validate with time-based/DNS-OOB, never `--dump` |92| Memory safety (C/C++) | SIGSEGV/SIGABRT, glibc `corrupted`/`double free`, ASan reports | auditd ANOM_ABEND Sigma; EDR RWX/W^X alerts | CPG review silent; fuzz a local copy in a container, purge cores (may hold secrets) |93| Deserialization / proto-pollution | Java `rO0AB`/.NET `AAEAAAD/////` in bodies; JVM->LDAP/RMI; `POST /` w/ `Next-Action` (CVE-2025-55182) | egress Sigma to 389/636/1099/1389; body-marker rules | prove gadget chain exists; `id`/DNS callback not reverse shell; proto-pollution is global -> revert |94| Secrets / crypto / authz / TOCTOU | `AKIA*`/`ghp_*` patterns; `alg:none`; sequential-id 200s; symlink-race auditd | secret-scanning push protection; symlink/PATH auditd | secret *verification* makes a logged provider API call -> only in scope; read one record for IDOR/TOCTOU evidence |95| Supply chain (SCA / worm) | install hook spawning shell/net; `bundle.js`/`setup_bun.js`; new public `Shai-Hulud` repo | install-script process-creation Sigma; agentless SBOM lookup | never `npm install` a suspect tree; `--ignore-scripts` in a disposable container; treat a compromised dep as full host compromise |9697## Deep Dives9899- references/taint-engines-static-analysis.md — taint theory + propagation rules;100 Semgrep (taint mode, Pro interfile, Opengrep), CodeQL modular dataflow API,101 Joern CPG/`reachableBy`; engine orchestration + multi-tool merge; CPG+LLM (2025).102- references/injection-source-patterns.md — source-code shapes of SQLi (incl.103 identifier/ORDER BY/2nd-order/NoSQL), OS command & argument injection, SSTI,104 path traversal, SSRF; per-language safe/vuln pairs; Joern/Semgrep confirmation.105- references/memory-safety-c-cpp.md — integer overflow->overflow, UAF/double-free,106 unbounded copy, NULL deref; the 2025 libxml2 CVE cluster; ASan/UBSan + fuzzing107 confirmation; `unsafe` Rust surface.108- references/deserialization-prototype-pollution.md — CWE-502 sinks + gadget109 preconditions (ysoserial/phpggc/ysoserial.net), JS prototype pollution->RCE;110 React2Shell CVE-2025-55182, Tomcat CVE-2025-24813, lodash CVE-2025-13465, Silent111 Spring.112- references/secrets-crypto-authz-concurrency.md — hardcoded secrets (gitleaks/113 trufflehog/Kingfisher), weak crypto, IDOR/BOLA, TOCTOU/race; LLM-augmented114 secret detection (2025).115- references/supply-chain-dependency-audit.md — OSV/SCA, malicious-package & install116 worm heuristics, typosquats; Shai-Hulud 1.0/2.0/Mini (CVE-2026-45321), the SLSA117 provenance-bypass lesson.118- references/variant-hunting.md — HUNT protocol: one confirmed finding -> tree-wide sibling119 sweep, same-function taint qualification, root-cause clustering (copy-paste/shared-util/120 framework-misuse) to decide one-fix-or-many; backed by `variant_hunt.py`. Pairs with121 `evidence_kit.py` (re-verifiable EVD evidence), `path_conditions.py` (Z3 path-prune, tri-state),122 and `merge_runtime_evidence.py` (Frida runtime sink confirmation).