Finally got my box working, was working perfectly fine, then I setup the Plex Server, and added some shares to another box.

Plex was indexing the music files, and the system just crashed.

Rebooted, and it would startup into the OS (with the bar graph on the bottom completing) then it would go directly into a shell prompt asking for a password for root.

ClearOS stopped routing, and everything else stopped, as far as I could tell