I've encountered that problem as well with CC and ClearOS.
You can read more about in the
CC forums. It is a good post to read if you need to reinstall any NICs.
I've since stopped using my COS box as a gateway as PPPoE authentication as it is simply too unreliable. Granted, it may have been a combination of my two previous Linksys routers causing hell in strange minuscule ways. Should PPPoE fail, rebooting the entire server is impractical when compared to just rebooting a simple router. (power cycle, done) I've purchased a NetGear router, while not DD-WRT or made by Cisco, works very well and is simple to use in the event that the guy who set up the entire network is not here, falls off the face of the earth or generally has a psychotic episode from hell and decides to check out.
The standalone COS can work with any further modifications and do what it needs to do; dish up web pages and make money.