Personally, I'd have to say keep the CE ROM stored away indefinitely, in case of a court case involving copyright like this is won. That can be used as a good defense to continue CE. Although, I'd take SE to court first to win the right, otherwise they can sue the compendium and cost us.
See, if you destroy every asset of CE, and something does happen that justifies its production... well, I can imagine the CE team would end up with a feeling of regret.
So, to keep it short, keep CE but don't distribute it (not publicly at least). I think what's common with CE, PG, CTR, CTRB, etc is that their project info was out in the open for anyone to read. Keep your projects amongst your friends I say, or at least people you trust a lot.