I have some thin config files (generated with sudo thin install) which are slightly modified (only paths where they're located). I can start them just fine with /etc/init.d/thin start, but if the server is restarted, they're not auto started. I issued the update-rc.d thin defaults command to make it run on startup, but no luck yet. This server is running Ubuntu 12.04.1 32-bit, Ruby 1.9.3p194, MongoDB 2.2.0.