diff --git a/Makefile b/Makefile
index 834f2ce..381374c 100755
--- a/Makefile
+++ b/Makefile
@@ -1,49 +1,50 @@
 SERVICES=traefik whoami gitea nextcloud devbox docs-site
+SERVICES_DIR=services
 
 .PHONY: up down restart backup init-env env-sync docs generate-docs serve-docs logs status up-% down-%
 
 up:
 	for svc in $(SERVICES); do \
-		if [ -f "$$svc/docker-compose.yml" ]; then \
+		if [ -f "$(SERVICES_DIR)/$$svc/docker-compose.yml" ]; then \
 			echo "Starting $$svc..."; \
-			(cd $$svc && docker compose --env-file ../.env `if [ -f .env ]; then echo --env-file .env; fi` up -d); \
+			(cd $(SERVICES_DIR)/$$svc && docker compose --env-file ../../.env `if [ -f .env ]; then echo --env-file .env; fi` up -d); \
 		fi; \
 	done; \
 
 up-%:
 	@svc=$*; \
-	if [ -f "$$svc/docker-compose.yml" ]; then \
+	if [ -f "$(SERVICES_DIR)/$$svc/docker-compose.yml" ]; then \
 		echo "Starting $$svc..."; \
-		(cd $$svc && docker compose --env-file ../.env `if [ -f .env ]; then echo --env-file .env; fi` up -d); \
+		(cd $(SERVICES_DIR)/$$svc && docker compose --env-file ../../.env `if [ -f .env ]; then echo --env-file .env; fi` up -d); \
 	fi
 
 down-%:
 	@svc=$*; \
-	if [ -f "$$svc/docker-compose.yml" ]; then \
+	if [ -f "$(SERVICES_DIR)/$$svc/docker-compose.yml" ]; then \
 		echo "Stopping $$svc..."; \
-		(cd $$svc && docker compose down); \
+		(cd $(SERVICES_DIR)/$$svc && docker compose down); \
 	fi
 
 down:
 	@for svc in $(SERVICES); do \
-		if [ -f "$$svc/docker-compose.yml" ]; then \
+		if [ -f "$(SERVICES_DIR)/$$svc/docker-compose.yml" ]; then \
 			echo "Stopping $$svc..."; \
-			(cd $$svc && docker compose down); \
+			(cd $(SERVICES_DIR)/$$svc && docker compose down); \
 		fi; \
 	done
 
 restart: down up
 
 logs:
-	@echo "=== Traefik ===" && (cd traefik && docker compose logs --tail=10)
-	@echo "=== Gitea ===" && (cd gitea && docker compose logs --tail=10)
-	@echo "=== Nextcloud ===" && (cd nextcloud && docker compose logs --tail=10)
+	@echo "=== Traefik ===" && (cd $(SERVICES_DIR)/traefik && docker compose logs --tail=10)
+	@echo "=== Gitea ===" && (cd $(SERVICES_DIR)/gitea && docker compose logs --tail=10)
+	@echo "=== Nextcloud ===" && (cd $(SERVICES_DIR)/nextcloud && docker compose logs --tail=10)
 
 status:
 	@for svc in $(SERVICES); do \
-		if [ -f "$$svc/docker-compose.yml" ]; then \
+		if [ -f "$(SERVICES_DIR)/$$svc/docker-compose.yml" ]; then \
 			echo "--- $$svc ---"; \
-			(cd $$svc && docker compose ps --format "table {{.Name}}\t{{.Status}}\t{{.Ports}}"); \
+			(cd $(SERVICES_DIR)/$$svc && docker compose ps --format "table {{.Name}}\t{{.Status}}\t{{.Ports}}"); \
 		fi; \
 	done
 
@@ -69,6 +70,12 @@ generate-docs:
 	python3 scripts/generate_docs.py
 
 docs: generate-docs
+	@command -v uvx >/dev/null 2>&1 || { \
+		echo "Error: uvx is not installed or not in PATH."; \
+		echo "Install with: curl -LsSf https://astral.sh/uv/install.sh | sh"; \
+		echo "Then run: source $$HOME/.local/bin/env"; \
+		exit 1; \
+	}
 	uvx --from mkdocs-material --with mkdocs-include-markdown-plugin mkdocs build
 
 serve-docs: generate-docs
diff --git a/README.md b/README.md
index 146f508..a5ca38d 100755
--- a/README.md
+++ b/README.md
@@ -1,3 +1,7 @@
+> ⚠️ **Early development**
+>
+> This project is in early development and not all features are working yet. Use with caution.
+
 # homelab-infra
 
 GitOps-managed infrastructure for homelab services using Docker Compose and Traefik for routing.
@@ -39,8 +43,9 @@ homelab-infra/
 ├── docs/                 # MkDocs documentation source
 ├── mkdocs.yml            # MkDocs configuration
 ├── scripts/              # Utility scripts
-└── [service]/            # Per-service configurations
-    ├── docker-compose.yml
-    ├── .env.example
-    └── README.md
+└── services/             # Per-service configurations
+    └── [service]/
+        ├── docker-compose.yml
+        ├── .env.example
+        └── README.md
 ```
diff --git a/docs/dev/check_env_sync.md b/docs/dev/check_env_sync.md
deleted file mode 100644
index 5f9e1c1..0000000
--- a/docs/dev/check_env_sync.md
+++ /dev/null
@@ -1,5 +0,0 @@
-# check_env_sync
-
-> Python script documentation
-
-::: scripts.check_env_sync
diff --git a/docs/dev/generate_docs.md b/docs/dev/generate_docs.md
deleted file mode 100644
index 959b338..0000000
--- a/docs/dev/generate_docs.md
+++ /dev/null
@@ -1,5 +0,0 @@
-# generate_docs
-
-> Python script documentation
-
-::: scripts.generate_docs
diff --git a/docs/index.md b/docs/index.md
index 58df80e..d7a8efa 100755
--- a/docs/index.md
+++ b/docs/index.md
@@ -1,5 +1,8 @@
 # SJHL Documentation
 
+!!! warning "Early development"
+   This documentation is in early development and not all features are working yet. Use with caution.
+
 Welcome to Seirian & James' homelab documentation! This is a docs site that is built to easily show all the configs we use. MOst of the content is auto-generated from the actual config files, so it should always be up to date. This should be completely publically viewable as all private information is kept in `.env` files that are not committed to Git. It should provide good information on how to recover and rebuild the homelab if needed, and also just be a nice reference for how everything is configured.
 
 ## Data Classification
@@ -7,7 +10,7 @@ Welcome to Seirian & James' homelab documentation! This is a docs site that is b
 | Type | Example | Git Repo? | Backup? | Location |
 |------|---------|-----------|---------|----------|
 | **Source Configs** | `docker-compose.yml`, `.env.example`, `Makefile` | Yes | No | `/srv/homelab-infra` |
-| **Service Secrets** | `.env` (DB passwords, API keys) | No | Yes | `/srv/homelab-infra/<service>/.env` |
+| **Service Secrets** | `.env` (DB passwords, API keys) | No | Yes | `/srv/homelab-infra/services/<service>/.env` |
 | **Runtime Configs** | `acme.json`, service configs | No | Yes | `/mnt/storage/docker-data/<service>` |
 | **Persistent Data** | DB data, uploads, media | No | Yes | `/mnt/storage/docker-data/<service>` |
 
@@ -15,6 +18,7 @@ Welcome to Seirian & James' homelab documentation! This is a docs site that is b
 
 | Service | Image | Status |
 |---------|-------|--------|
+| [cloudflare-ddns](services/cloudflare-ddns.md) | `favonia/cloudflare-ddns:1` | active |
 | [devbox](services/devbox.md) | `devbox-devcontainer` | active |
 | [docs-site](services/docs-site.md) | `nginx:alpine` | active |
 | [gitea](services/gitea.md) | `gitea/gitea:1.24.3` | active |
@@ -29,21 +33,21 @@ Welcome to Seirian & James' homelab documentation! This is a docs site that is b
 git clone git@gitea.sjhl.nz:james/homelab-infra.git
 cd homelab-infra
 
-# Set up environment
-cp .env.example .env
-# Edit .env with real values
+# Create all missing .env files from templates
+make init-env
 
-# Set up service secrets
-for svc in traefik gitea nextcloud qbittorrent jellyfin devbox obsidian; do
-    [ -f "$svc/.env.example" ] && cp "$svc/.env.example" "$svc/.env"
-    # Edit each .env with real secrets
-done
+# Edit .env and services/*/.env with real secrets
 
 # Create required Docker networks
 docker network create web
 
-# Start everything
+# Start and verify everything
 make up
+make status
+
+# Optional: start/stop one service
+# make up-<service>
+# make down-<service>
 ```
 
 ## Commands
@@ -114,9 +118,13 @@ homelab-infra/
 ├── backup.sh             # Restic backup script
 ├── .pre-commit-config.yaml  # Pre-commit hooks
 ├── docs/                 # MkDocs documentation
-├── mkdocs.yml              # MkDocs config
-├── scripts/                # Utility scripts
-└── [service subdirs]/             # All services have their own subdir
+├── mkdocs.yml             # MkDocs config
+├── scripts/               # Utility scripts
+└── services/              # Service definitions
+   └── <service>/         # One folder per service
+      ├── docker-compose.yml
+      ├── .env.example
+      └── README.md
 ```
 
 ## Data Locations
diff --git a/docs/recovery.md b/docs/recovery.md
deleted file mode 100755
index c953cd1..0000000
--- a/docs/recovery.md
+++ /dev/null
@@ -1,66 +0,0 @@
-# Recovery Reference
-
-This document was generated from `docker inspect` dumps taken after the accidental deletion of `/home/james`. It preserves the last known-good configuration state for rebuilding services.
-
-## Container Summary
-
-### traefik (Reverse Proxy)
-- **Image:** `traefik:v3.6`
-- **Config path (old):** `/home/james/apps/traefik/`
-- **Volumes:** certs, dynamic config, docker.sock (ro)
-- **Networks:** `web` (external)
-- **Ports:** 80, 443, 8082->8080
-- **Let's Encrypt:** HTTP challenge, email `letsencrypt.debug772@passmail.net`
-
-### gitea
-- **Image:** `gitea/gitea:1.24.3`
-- **Data path (old):** `/mnt/storage/apps/gitea`
-- **DB:** SQLite3
-- **SSH:** port 222
-- **URL:** `https://gitea.sjhl.nz/`
-
-### nextcloud (AIO)
-- **Image:** `ghcr.io/nextcloud-releases/all-in-one:latest`
-- **Data path (old):** `/mnt/storage/apps/nextcloud`
-- **Components:** mastercontainer, apache, nextcloud, database (PostgreSQL 17), redis, collabora, imaginary, whiteboard, notify-push
-- **URL:** `https://nextcloud.sjhl.nz`
-- **AIO mgmt:** port 8081
-- **Apache port:** 11000
-
-### qbittorrent + VPN
-- **VPN:** ProtonVPN WireGuard, New Zealand, port forwarding
-- **Data path (old):** `/home/james/apps/qbittorrent/`
-- **Downloads:** `/mnt/storage/torrents`
-- **Components:** gluetun, qbittorrent, jackett
-- **Ports:** 8080 (qBittorrent), 9117 (Jackett)
-
-### jellyfin
-- **Image:** `jellyfin/jellyfin:10.10.7`
-- **Config path (old):** `/home/james/apps/jellyfin-config`
-- **Media:** `/mnt/storage`
-- **Port:** 8096
-- **Network:** default bridge (NOT on `web` network)
-- **Note:** Was not behind Traefik in old setup
-
-### devbox
-- **Image:** `devbox-devcontainer` (local build)
-- **Data path (old):** `/mnt/storage/apps/devbox`
-- **Port:** 46573->2222 (SSH)
-- **Memory limit:** 10GB, swap 20GB
-
-### obsidian-livesync
-- **Image:** `couchdb:latest`
-- **Status:** Exited (127) at time of backup
-- **Note:** No inspect data captured, container was stopped
-
-## Recovery Path Mapping
-
-| Old Path | New Path |
-|----------|----------|
-| `/home/james/apps/traefik/` | `/mnt/storage/docker-data/traefik/` |
-| `/home/james/apps/qbittorrent/` | `/mnt/storage/docker-data/qbittorrent/` |
-| `/home/james/apps/jellyfin-config` | `/mnt/storage/docker-data/jellyfin/config` |
-| `/mnt/storage/apps/gitea` | `/mnt/storage/docker-data/gitea` |
-| `/mnt/storage/apps/nextcloud` | `/mnt/storage/docker-data/nextcloud` |
-| `/mnt/storage/apps/devbox` | `/mnt/storage/docker-data/devbox` |
-| `/mnt/storage/torrents` | `/mnt/storage/torrents` (unchanged) |
diff --git a/docs/services/cloudflare-ddns.md b/docs/services/cloudflare-ddns.md
new file mode 100644
index 0000000..ac996be
--- /dev/null
+++ b/docs/services/cloudflare-ddns.md
@@ -0,0 +1,15 @@
+# cloudflare-ddns
+
+
+> Below are the configuration files for this service. For details on how to deploy or customize, refer to the README above or the official documentation for the service.
+## Docker Compose Configuration
+
+```yaml
+--8<-- "services/cloudflare-ddns/docker-compose.yml"
+```
+
+## Environment Variables (`.env.example`)
+
+```bash
+--8<-- "services/cloudflare-ddns/.env.example"
+```
diff --git a/docs/services/devbox.md b/docs/services/devbox.md
index 5ca3732..872e4ef 100755
--- a/docs/services/devbox.md
+++ b/docs/services/devbox.md
@@ -5,11 +5,11 @@
 ## Docker Compose Configuration
 
 ```yaml
---8<-- "devbox/docker-compose.yml"
+--8<-- "services/devbox/docker-compose.yml"
 ```
 
 ## Environment Variables (`.env.example`)
 
 ```bash
---8<-- "devbox/.env.example"
+--8<-- "services/devbox/.env.example"
 ```
diff --git a/docs/services/docs-site.md b/docs/services/docs-site.md
index 686ba3d..20de182 100644
--- a/docs/services/docs-site.md
+++ b/docs/services/docs-site.md
@@ -1,10 +1,10 @@
 # docs-site
 
 
---8<-- "docs-site/README.md"
+--8<-- "services/docs-site/README.md"
 > Below are the configuration files for this service. For details on how to deploy or customize, refer to the README above or the official documentation for the service.
 ## Docker Compose Configuration
 
 ```yaml
---8<-- "docs-site/docker-compose.yml"
+--8<-- "services/docs-site/docker-compose.yml"
 ```
diff --git a/docs/services/gitea.md b/docs/services/gitea.md
index 19ac060..802dd52 100755
--- a/docs/services/gitea.md
+++ b/docs/services/gitea.md
@@ -5,11 +5,11 @@
 ## Docker Compose Configuration
 
 ```yaml
---8<-- "gitea/docker-compose.yml"
+--8<-- "services/gitea/docker-compose.yml"
 ```
 
 ## Environment Variables (`.env.example`)
 
 ```bash
---8<-- "gitea/.env.example"
+--8<-- "services/gitea/.env.example"
 ```
diff --git a/docs/services/nextcloud.md b/docs/services/nextcloud.md
index 1fecd77..d43532f 100755
--- a/docs/services/nextcloud.md
+++ b/docs/services/nextcloud.md
@@ -5,11 +5,11 @@
 ## Docker Compose Configuration
 
 ```yaml
---8<-- "nextcloud/docker-compose.yml"
+--8<-- "services/nextcloud/docker-compose.yml"
 ```
 
 ## Environment Variables (`.env.example`)
 
 ```bash
---8<-- "nextcloud/.env.example"
+--8<-- "services/nextcloud/.env.example"
 ```
diff --git a/docs/services/obsidian-livesync.md b/docs/services/obsidian-livesync.md
index 967f364..7fd00b4 100755
--- a/docs/services/obsidian-livesync.md
+++ b/docs/services/obsidian-livesync.md
@@ -1,16 +1,16 @@
 # obsidian-livesync
 
 
---8<-- "obsidian-livesync/README.md"
+--8<-- "services/obsidian-livesync/README.md"
 > Below are the configuration files for this service. For details on how to deploy or customize, refer to the README above or the official documentation for the service.
 ## Docker Compose Configuration
 
 ```yaml
---8<-- "obsidian-livesync/docker-compose.yml"
+--8<-- "services/obsidian-livesync/docker-compose.yml"
 ```
 
 ## Environment Variables (`.env.example`)
 
 ```bash
---8<-- "obsidian-livesync/.env.example"
+--8<-- "services/obsidian-livesync/.env.example"
 ```
diff --git a/docs/services/traefik.md b/docs/services/traefik.md
index 1871fbf..3536d81 100755
--- a/docs/services/traefik.md
+++ b/docs/services/traefik.md
@@ -1,16 +1,16 @@
 # traefik
 
 
---8<-- "traefik/README.md"
+--8<-- "services/traefik/README.md"
 > Below are the configuration files for this service. For details on how to deploy or customize, refer to the README above or the official documentation for the service.
 ## Docker Compose Configuration
 
 ```yaml
---8<-- "traefik/docker-compose.yml"
+--8<-- "services/traefik/docker-compose.yml"
 ```
 
 ## Environment Variables (`.env.example`)
 
 ```bash
---8<-- "traefik/.env.example"
+--8<-- "services/traefik/.env.example"
 ```
diff --git a/docs/services/whoami.md b/docs/services/whoami.md
index 2c0c39c..402d779 100755
--- a/docs/services/whoami.md
+++ b/docs/services/whoami.md
@@ -5,5 +5,5 @@
 ## Docker Compose Configuration
 
 ```yaml
---8<-- "whoami/docker-compose.yml"
+--8<-- "services/whoami/docker-compose.yml"
 ```
diff --git a/mkdocs.yml b/mkdocs.yml
index 2db5827..3fe960b 100755
--- a/mkdocs.yml
+++ b/mkdocs.yml
@@ -9,8 +9,8 @@ markdown_extensions:
     - .
 nav:
 - Home: index.md
-- Recovery Reference: recovery.md
 - Services:
+  - Cloudflare Ddns: services/cloudflare-ddns.md
   - Devbox: services/devbox.md
   - Docs Site: services/docs-site.md
   - Gitea: services/gitea.md
diff --git a/scripts/generate_docs.py b/scripts/generate_docs.py
index bb7f523..cdb0a37 100755
--- a/scripts/generate_docs.py
+++ b/scripts/generate_docs.py
@@ -4,12 +4,11 @@ Auto-generate markdown docs from docker-compose.yml files.
 Usage: python3 scripts/generate_docs.py
 """
 import yaml
-import os
 import sys
 from pathlib import Path
 
 REPO_ROOT = Path(__file__).parent.parent
-SERVICES_DIR = REPO_ROOT
+SERVICES_DIR = REPO_ROOT / "services"
 DOCS_DIR = REPO_ROOT / "docs" / "services"
 
 DISPLAY_NAME_OVERRIDES = {
@@ -175,6 +174,8 @@ def format_security(sec):
 
 def generate_service_md(service_name, service_dir):
     """Generate service doc that includes docker-compose.yml, Dockerfile, README, and .env.example."""
+    include_base = f"services/{service_dir.name}"
+
     lines = []
     lines.append(f"# {service_name}")
     lines.append("")
@@ -183,7 +184,7 @@ def generate_service_md(service_name, service_dir):
     # Include README.md first if exists
     readme_path = service_dir / "README.md"
     if readme_path.exists():
-        lines.append(f'--8<-- "{service_dir.name}/README.md"')
+        lines.append(f'--8<-- "{include_base}/README.md"')
 
     lines.append("> Below are the configuration files for this service. For details on how to deploy or customize, refer to the README above or the official documentation for the service.")
     # Include docker-compose.yml
@@ -192,7 +193,7 @@ def generate_service_md(service_name, service_dir):
         lines.append("## Docker Compose Configuration")
         lines.append("")
         lines.append("```yaml")
-        lines.append(f'--8<-- "{service_dir.name}/docker-compose.yml"')
+        lines.append(f'--8<-- "{include_base}/docker-compose.yml"')
         lines.append("```")
         lines.append("")
 
@@ -202,7 +203,7 @@ def generate_service_md(service_name, service_dir):
         lines.append("## Dockerfile")
         lines.append("")
         lines.append("```dockerfile")
-        lines.append(f'--8<-- "{service_dir.name}/Dockerfile"')
+        lines.append(f'--8<-- "{include_base}/Dockerfile"')
         lines.append("```")
         lines.append("")
 
@@ -212,7 +213,7 @@ def generate_service_md(service_name, service_dir):
         lines.append("## Environment Variables (`.env.example`)")
         lines.append("")
         lines.append("```bash")
-        lines.append(f'--8<-- "{service_dir.name}/.env.example"')
+        lines.append(f'--8<-- "{include_base}/.env.example"')
         lines.append("```")
         lines.append("")
 
@@ -275,6 +276,10 @@ def cleanup_stale_service_docs(service_names):
 
 
 def main():
+    if not SERVICES_DIR.exists():
+        print(f"Services directory not found: {SERVICES_DIR}", file=sys.stderr)
+        return
+
     all_services = {}
 
     # Find all service directories with docker-compose.yml
@@ -284,9 +289,6 @@ def main():
         compose_file = item / "docker-compose.yml"
         if not compose_file.exists():
             continue
-        # Skip scripts/docs directories
-        if item.name in ("scripts", "docs", "__pycache__"):
-            continue
 
         service_name = item.name
         try:
diff --git a/services/cloudflare-ddns/.env.example b/services/cloudflare-ddns/.env.example
new file mode 100644
index 0000000..5a6221c
--- /dev/null
+++ b/services/cloudflare-ddns/.env.example
@@ -0,0 +1,6 @@
+# cloudflare-ddns/.env
+# Copy to .env and fill in real values. NEVER commit .env.
+
+CLOUDFLARE_API_TOKEN=__CHANGEME__
+DOMAINS=example.org,www.example.org
+PROXIED=true
diff --git a/services/cloudflare-ddns/docker-compose.yml b/services/cloudflare-ddns/docker-compose.yml
new file mode 100644
index 0000000..0305cd4
--- /dev/null
+++ b/services/cloudflare-ddns/docker-compose.yml
@@ -0,0 +1,34 @@
+services:
+  cloudflare-ddns:
+    image: favonia/cloudflare-ddns:1
+    # Prefer "1" or "1.x.y" in production.
+    #
+    # - "1" tracks the latest stable release whose major version is 1
+    # - "1.x.y" pins one specific stable version
+    # - "latest" moves to each new stable release and may pick up breaking
+    #   changes in a future major release, so it is not recommended in production
+    # - "edge" tracks the latest unreleased development build
+    network_mode: host
+    # Optional. This bypasses network isolation and makes IPv6 easier.
+    # See "Use IPv6 without sharing the host network".
+    restart: always
+    # Restart the updater after reboot
+    user: "1000:1000"
+    # Run the updater with specific user and group IDs (in that order).
+    # You can change the two numbers based on your need.
+    read_only: true
+    # Make the container filesystem read-only (optional but recommended)
+    cap_drop: [all]
+    # Drop all Linux capabilities (optional but recommended)
+    security_opt: [no-new-privileges:true]
+    # Another protection to restrict superuser privileges (optional but recommended)
+    env_file:
+      - .env
+    environment:
+      - CLOUDFLARE_API_TOKEN=${CLOUDFLARE_API_TOKEN}
+        # Your Cloudflare API token
+      - DOMAINS=${DOMAINS}
+        # Your domains (separated by commas)
+      - PROXIED=${PROXIED:-true}
+        # Leaning toward using Cloudflare's proxy for these domains (optional)
+        # Existing DNS records in Cloudflare keep their current proxy statuses
\ No newline at end of file
diff --git a/devbox/.env.example b/services/devbox/.env.example
similarity index 100%
rename from devbox/.env.example
rename to services/devbox/.env.example
diff --git a/devbox/docker-compose.yml b/services/devbox/docker-compose.yml
similarity index 100%
rename from devbox/docker-compose.yml
rename to services/devbox/docker-compose.yml
diff --git a/docs-site/README.md b/services/docs-site/README.md
similarity index 100%
rename from docs-site/README.md
rename to services/docs-site/README.md
diff --git a/docs-site/docker-compose.yml b/services/docs-site/docker-compose.yml
similarity index 100%
rename from docs-site/docker-compose.yml
rename to services/docs-site/docker-compose.yml
diff --git a/gitea/.env.example b/services/gitea/.env.example
similarity index 100%
rename from gitea/.env.example
rename to services/gitea/.env.example
diff --git a/gitea/docker-compose.yml b/services/gitea/docker-compose.yml
similarity index 100%
rename from gitea/docker-compose.yml
rename to services/gitea/docker-compose.yml
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