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e8f5ecf3c9
Closes M-001 + M-002 + M-013 + M-018 + M-025 from
comprehensive-audit-2026-04-25.
M-001 (CWE-916) — PBKDF2 100k -> 600k via v3 blob format
internal/crypto/encryption.go:
- New v3Magic (0x03), pbkdf2IterationsV3 (600,000 — OWASP 2024
Password Storage Cheat Sheet floor), v3SaltSize (16 bytes),
deriveKeyWithSaltV3 helper.
- EncryptIfKeySet now unconditionally writes v3:
magic(0x03) || salt(16) || nonce(12) || ciphertext+tag
- DecryptIfKeySet falls through v3 -> v2 -> v1 with AEAD verification
at each step. Wrong-passphrase v3 reads cannot be silently
misattributed to v2/v1.
- IsLegacyFormat updated to recognize 0x03 as non-legacy.
internal/crypto/encryption_v3_test.go (NEW, 7 tests):
V3 round-trip / V2 read-fallback against deterministic v2 fixture /
V3 wrong-passphrase fails / V3-vs-V2 dispatch order / V2 vs V3 keys
differ for same (passphrase, salt) / iteration-count pin at OWASP
2024 floor / IsLegacyFormat-recognises-V3.
Coverage internal/crypto: 86.7% -> 88.2%.
M-002 (CWE-862) — Auth-exempt allowlist constants + AST regression test
Recon found auth-exempt surface spans TWO layers (audit's claim was
incomplete):
Layer 1 (router.go direct r.mux.Handle):
GET /health, GET /ready, GET /api/v1/auth/info, GET /api/v1/version
Layer 2 (cmd/server/main.go::buildFinalHandler URL-prefix dispatch):
/.well-known/pki/*, /.well-known/est/*, /scep[/...]*
internal/api/router/router.go:
- New AuthExemptRouterRoutes constant with per-entry justifications.
- New AuthExemptDispatchPrefixes constant.
internal/api/router/auth_exempt_test.go (NEW, 2 tests):
AST-walks router.go for every direct mux.Handle call and asserts
set equals AuthExemptRouterRoutes; reads source bytes of Register /
RegisterFunc and asserts they still wrap with middleware.Chain.
cmd/server/auth_exempt_test.go (NEW, 2 tests):
14-case table test on buildFinalHandler asserting documented
prefixes route to noAuthHandler and authenticated routes route to
apiHandler; inverse-overlap pin proves no documented bypass shadows
an authenticated prefix.
M-013 (CWE-942) — CORS deny-by-default verified-already-clean + pin
Audit claim 'default allows all origins if env-var unset' was WRONG.
internal/api/middleware/middleware.go::NewCORS already denies cross-
origin requests when len(cfg.AllowedOrigins) == 0 (no
Access-Control-Allow-Origin header is emitted, same-origin policy
applies).
internal/api/middleware/cors_test.go: +TestNewCORS_NilOriginsDeniesAll
+ TestNewCORS_M013_ContractDocumentedInOrder (5-case table test
pinning the 3-arm dispatch contract).
M-018 (CWE-319 / PCI-DSS Req 4) — Postgres TLS opt-in toggle
deploy/helm/certctl/values.yaml: new postgresql.tls.{mode,caSecretRef}
operator-facing knobs. Default 'disable' preserves in-cluster pod-
network behavior; PCI-scoped operators set verify-full.
deploy/helm/certctl/templates/_helpers.tpl: certctl.databaseURL helper
pipes postgresql.tls.mode into ?sslmode=.
deploy/helm/certctl/templates/server-secret.yaml: uses the helper
instead of hardcoded sslmode=disable.
deploy/docker-compose.yml: CERTCTL_DATABASE_URL is now
${CERTCTL_DATABASE_URL:-...} so operators override without editing.
docs/database-tls.md (NEW): operator runbook covering 4 deployment
shapes, RDS verify-full example with PGSSLROOTCERT mount, and
pg_stat_ssl verification query.
helm template + helm lint clean.
M-025 (OWASP ASVS L2 §11.2.1) — Per-key rate limiting
internal/api/middleware/middleware.go::NewRateLimiter rewritten from
a single global tokenBucket to a keyedRateLimiter map keyed on
'user:'+GetUser(ctx) for authenticated callers
'ip:'+RemoteAddr-host for unauthenticated
- Empty UserKey strings treated as unauthenticated.
- X-Forwarded-For intentionally NOT consulted (header-spoofing risk).
- Create-on-demand bucket allocation under sync.RWMutex with double-
check pattern.
RateLimitConfig.PerUserRPS / PerUserBurstSize fields with env vars
CERTCTL_RATE_LIMIT_PER_USER_RPS / CERTCTL_RATE_LIMIT_PER_USER_BURST
allow per-user budgets distinct from per-IP.
internal/api/middleware/ratelimit_keyed_test.go (NEW, 5 tests):
TwoIPsHaveIndependentBuckets / SameUserDifferentIPsShareBucket /
TwoUsersHaveIndependentBuckets / PerUserBudgetOverride /
EmptyUserKeyTreatedAsAnonymous.
Coverage internal/api/middleware: 82.1% -> 83.7%.
Audit deliverables:
cowork/comprehensive-audit-2026-04-25/audit-report.md: score
25/55 -> 30/55 closed (High 7/9, Medium 7/27 -> 12/27, Low 8/19).
cowork/comprehensive-audit-2026-04-25/findings.yaml: 5 status flips
open -> closed with closure notes citing the Bundle B mechanism.
certctl/CHANGELOG.md: Bundle B section under [unreleased].
Verification:
go test -count=1 -short ./... all green
staticcheck on changed packages no new SA*/ST* hits
(the 4 pre-existing SA1019 sites in cmd/server/main_test.go are
Bundle 9 / M-028 partial closure leftovers tracked in Bundle C)
helm template + helm lint clean
internal/repository/postgres setup-fail sandbox disk pressure,
same on master HEAD before this branch — environmental, not Bundle B
Certctl Helm Chart
Production-ready Helm chart for deploying certctl (self-hosted certificate lifecycle management platform) on Kubernetes.
Table of Contents
- Quick Start
- Chart Features
- Prerequisites
- Installation
- Configuration
- Usage Examples
- Upgrading
- Uninstalling
- Architecture
- Security Considerations
- Troubleshooting
Quick Start
# Add the chart repository (when available)
helm repo add certctl https://charts.example.com
helm repo update
# Install with default values
helm install certctl certctl/certctl \
--set server.auth.apiKey="your-secure-api-key" \
--set postgresql.auth.password="your-secure-password"
# Check installation status
kubectl get pods -l app.kubernetes.io/instance=certctl
Chart Features
- Server Deployment — certctl control plane with configurable replicas
- PostgreSQL StatefulSet — Persistent database with automatic schema migration
- Agent DaemonSet or Deployment — Flexible agent deployment (per-node or custom replicas)
- Ingress Support — Optional HTTPS ingress with cert-manager integration
- Security Contexts — Non-root containers, read-only filesystems, minimal capabilities
- Resource Limits — Configurable CPU and memory requests/limits
- Health Checks — Liveness and readiness probes on all containers
- ConfigMaps and Secrets — Centralized configuration management
- Service Account and RBAC — Optional cluster role bindings
- Pod Disruption Budgets — HA-ready with configurable disruption budgets
- Monitoring — Optional Prometheus ServiceMonitor support
Prerequisites
- Kubernetes 1.19 or later
- Helm 3.0 or later
- Optional: cert-manager (for automatic TLS certificate provisioning)
- Optional: Prometheus (for metrics scraping)
Installation
1. Using Chart from Repository
helm repo add certctl https://charts.example.com
helm repo update
helm install certctl certctl/certctl -f my-values.yaml
2. Using Local Chart
cd deploy/helm
helm install certctl certctl/ \
--set server.auth.apiKey="$(openssl rand -base64 32)" \
--set postgresql.auth.password="$(openssl rand -base64 32)"
3. Minimal Production Installation
helm install certctl certctl/certctl \
--namespace certctl \
--create-namespace \
--set server.auth.apiKey="change-me" \
--set postgresql.auth.password="change-me" \
--set server.replicas=2 \
--set server.resources.requests.cpu=200m \
--set server.resources.requests.memory=256Mi \
--set ingress.enabled=true \
--set ingress.className=nginx \
--set ingress.hosts[0].host=certctl.example.com
Configuration
Server Configuration
server:
replicas: 1 # Number of server replicas
port: 8443 # Service port
auth:
type: api-key # Authentication type
apiKey: "your-api-key" # REQUIRED for production
logging:
level: info # Log level (debug, info, warn, error)
format: json # Output format
issuer:
local:
enabled: true # Enable local CA issuer
acme:
enabled: false # Enable ACME issuer
directoryURL: "" # ACME directory URL
email: "" # ACME registration email
challengeType: "http-01" # Challenge type (http-01, dns-01, dns-persist-01)
PostgreSQL Configuration
postgresql:
enabled: true # Use managed PostgreSQL
auth:
database: certctl
username: certctl
password: "your-password" # REQUIRED
storage:
size: 10Gi # PVC size
storageClass: "" # Use default StorageClass
Agent Configuration
agent:
enabled: true # Deploy agents
kind: DaemonSet # DaemonSet (one per node) or Deployment
replicas: 1 # For Deployment kind only
discoveryDirs: "" # Comma-separated cert discovery paths
nodeSelector: {} # Node affinity for DaemonSet
Ingress Configuration
ingress:
enabled: false
className: nginx
annotations:
cert-manager.io/cluster-issuer: letsencrypt-prod
hosts:
- host: certctl.example.com
paths:
- path: /
pathType: Prefix
tls:
- secretName: certctl-tls
hosts:
- certctl.example.com
See values.yaml for all available configuration options.
Usage Examples
Example 1: High Availability Setup
# ha-values.yaml
server:
replicas: 3
resources:
requests:
cpu: 250m
memory: 256Mi
limits:
cpu: 1000m
memory: 512Mi
postgresql:
storage:
size: 50Gi
podAntiAffinity:
requiredDuringSchedulingIgnoredDuringExecution:
- labelSelector:
matchExpressions:
- key: app.kubernetes.io/component
operator: In
values: [server]
topologyKey: kubernetes.io/hostname
Deploy with:
helm install certctl certctl/certctl -f ha-values.yaml
Example 2: External PostgreSQL Database
# external-db-values.yaml
postgresql:
enabled: false
server:
env:
CERTCTL_DATABASE_URL: "postgres://user:password@rds.example.com:5432/certctl?sslmode=require"
Deploy with:
helm install certctl certctl/certctl -f external-db-values.yaml
Example 3: ACME + Let's Encrypt
# acme-values.yaml
server:
issuer:
acme:
enabled: true
directoryURL: https://acme-v02.api.letsencrypt.org/directory
email: admin@example.com
challengeType: dns-01
dnsPresentScript: /scripts/dns-present.sh
dnsCleanupScript: /scripts/dns-cleanup.sh
dnsPropagationWait: 30s
Example 4: Email Notifications via Slack + SMTP
# notifications-values.yaml
server:
smtp:
enabled: true
host: smtp.example.com
port: 587
username: certctl@example.com
password: "smtp-password"
fromAddress: certctl@example.com
useTLS: true
notifiers:
slack:
enabled: true
webhookUrl: https://hooks.slack.com/services/YOUR/WEBHOOK/URL
channel: "#certificates"
Upgrading
# Update chart repository
helm repo update
# Upgrade release
helm upgrade certctl certctl/certctl -f values.yaml
# View upgrade history
helm history certctl
# Rollback to previous version
helm rollback certctl 1
Uninstalling
# Delete the release (keeps data by default)
helm uninstall certctl
# Also delete persistent data
kubectl delete pvc --all -l app.kubernetes.io/instance=certctl
# Delete namespace
kubectl delete namespace certctl
Architecture
Components
┌──────────────────────────────────────────────────────────────┐
│ Kubernetes Cluster │
├──────────────────────────────────────────────────────────────┤
│ │
│ ┌─────────────────┐ ┌──────────────────┐ │
│ │ Ingress/LB │ │ Agent Pod 1 │ │
│ │ (optional) │ │ (DaemonSet) │ │
│ └────────┬────────┘ └──────────────────┘ │
│ │ │
│ ▼ ┌──────────────────┐ │
│ ┌─────────────────────────┐ │ Agent Pod 2 │ │
│ │ Server Deployment │ │ (DaemonSet) │ │
│ │ (1 to N replicas) │ └──────────────────┘ │
│ │ - REST API │ │
│ │ - Scheduler │ ┌──────────────────┐ │
│ │ - UI Dashboard │ │ Agent Pod N │ │
│ └────────┬────────────────┘ │ (DaemonSet) │ │
│ │ └──────────────────┘ │
│ │ │
│ ▼ │
│ ┌──────────────────────────┐ │
│ │ PostgreSQL StatefulSet │ │
│ │ - Database │ │
│ │ - PVC (persistent) │ │
│ └──────────────────────────┘ │
│ │
└──────────────────────────────────────────────────────────────┘
Network Communication
- Server → PostgreSQL: Internal cluster DNS (
certctl-postgres:5432) - Agent → Server: Internal cluster DNS (
certctl-server:8443) - External → Server: Via Ingress or Service (ClusterIP/LoadBalancer/NodePort)
Security Considerations
1. Secrets Management
All sensitive data is stored in Kubernetes Secrets:
- PostgreSQL credentials
- API keys
- SMTP passwords
- ACME account secrets
Best Practices:
- Use sealed-secrets or external-secrets operator
- Enable encryption at rest in etcd
- Rotate secrets regularly
# Example: Using sealed-secrets
kubectl create secret generic certctl-api-key --from-literal=api-key="$(openssl rand -base64 32)" --dry-run=client -o yaml | kubeseal -f - | kubectl apply -f -
2. RBAC
The chart creates minimal RBAC by default:
- ServiceAccount per release
- ClusterRole (empty, extensible)
- ClusterRoleBinding
To restrict further:
rbac:
create: true
# Add specific rules here
3. Pod Security
All containers run with:
- Non-root user (UID 1000)
- Read-only root filesystem
- No privilege escalation
- Dropped capabilities (ALL)
4. Network Policies
Restrict pod-to-pod communication:
apiVersion: networking.k8s.io/v1
kind: NetworkPolicy
metadata:
name: certctl-default-deny
spec:
podSelector:
matchLabels:
app.kubernetes.io/instance: certctl
policyTypes:
- Ingress
- Egress
ingress:
- from:
- namespaceSelector:
matchLabels:
name: certctl
egress:
- to:
- namespaceSelector:
matchLabels:
name: certctl
- to:
- podSelector: {}
ports:
- protocol: TCP
port: 53 # DNS
- protocol: UDP
port: 53
5. TLS/HTTPS
Enable HTTPS with cert-manager:
helm install cert-manager jetstack/cert-manager \
--namespace cert-manager \
--create-namespace \
--set installCRDs=true
Then configure Ingress with TLS.
6. API Key Security
For production:
- Generate a strong API key:
openssl rand -base64 32 - Store securely (Vault, sealed-secrets, etc.)
- Never commit to Git
- Rotate periodically
# Generate and deploy API key
NEW_KEY=$(openssl rand -base64 32)
kubectl patch secret certctl-server -p "{\"data\":{\"api-key\":\"$(echo -n $NEW_KEY | base64)\"}}"
Troubleshooting
1. Pods Not Starting
# Check pod status
kubectl get pods -l app.kubernetes.io/instance=certctl
kubectl describe pod <pod-name>
kubectl logs <pod-name>
2. Database Connection Issues
# Verify PostgreSQL is running
kubectl get pods -l app.kubernetes.io/component=postgres
kubectl logs -l app.kubernetes.io/component=postgres
# Test connection from server pod
kubectl exec -it <server-pod> -- \
psql postgres://certctl:password@certctl-postgres:5432/certctl
3. Agent Not Connecting
# Check agent logs
kubectl logs -l app.kubernetes.io/component=agent
# Verify server is reachable
kubectl exec -it <agent-pod> -- \
wget -q -O - http://certctl-server:8443/health
4. Persistent Data Loss
# Check PVC status
kubectl get pvc
# Verify data is being stored
kubectl exec -it <postgres-pod> -- \
ls -lah /var/lib/postgresql/data/postgres
5. Permission Denied Errors
The chart runs containers as non-root (UID 1000). If you see permission errors:
# Temporarily allow root for debugging
server:
securityContext:
runAsUser: 0 # NOT FOR PRODUCTION
6. Out of Memory
Increase resource limits:
helm upgrade certctl certctl/certctl \
--set server.resources.limits.memory=1Gi \
--set postgresql.resources.limits.memory=2Gi
7. Certificate Validation Issues
For self-signed certificates:
kubectl exec -it <pod> -- \
CERTCTL_TLS_INSECURE_SKIP_VERIFY=true <command>
Common Issues and Solutions
| Issue | Solution |
|---|---|
ImagePullBackOff |
Update server.image.repository to your registry |
CrashLoopBackOff |
Check logs with kubectl logs <pod> |
Pending PVC |
Check storage class availability |
| Connection timeout | Verify network policies and service DNS |
| High memory usage | Adjust postgresql.resources.limits and server.resources.limits |
Support and Contributing
For issues, questions, or contributions, visit:
- GitHub: https://github.com/shankar0123/certctl
- Documentation: https://github.com/shankar0123/certctl/tree/main/docs
License
BSL-1.1 (converts to Apache 2.0 in 2033)