1. Colonel Autumn wasn't involved in any death camps. The only thing the CW Enclave really did despicable was murder the LW's father, steal the Purifier, and kidnap that poor Pro-Enclave dude from Megaton.
What do you call the various checkpoints with dead wastlanders who were obviously killed by Enclave soldiers then? Or are you saying that Autumn had no knowledge of that? (which would make him a poor leader as well)
His disagreement with JHE was over the whole, "Poison Everyone" plan. He intended to use the Purifier to basically leverage all of the tribals into accepting the Enclave's rule - which is only immoral due to the fact the Enclave had nothing to do with the Purifier. It was the BOS and James' baby.
Apparently it wasn't just over the whole "Poison everyone plan." By his statements at the end of the game, he clearly had no idea that Eden was going to implement the plan "that plan was abandond months ago, he would never go behind my back!" Thus, he rebelled for some other reason, which I can only conclude to be a distrust of Eden, or him simply wanting more power for himself (either way, those are piss poor reasons to split the Enclave and cause its downfall).
The destruction of Raven's Rock was solely due to John Henry Eden deciding that destroying the Enclave was the only way that he could proceed given he was obviously malfunctioning. That wasn't Autumn's decision and he was already working to disable and destroy JHE by that time.
First off two things:
1. We don't know Eden was forced to self destruct. That opition requires fairly high speech/science checks. He could very well have been destroyed by Liberty Prime.
2. Autumns "disable plan" consisted of using the self-destruct sequence, which means he was basically threatening to blow up the Enclave
capital and main safe-point in the capital wasteland because of some petty disagreement with Eden. I don't care what his issues with Eden were, destoying Raven Rock because of that reason would have been absolutely stupid.
Also a side point: Eden "malfunctioning"? He wasn't "malfunctioning", in fact, its only through his solution that the Enclave win in Fallout 3. He was ten times the Enclave leader that Autumn was.
On Topic: we don't need a Enclave DLC, what we need is a legion-based DLC. I have confidence though that the Enclave will appear again in some form in a future game (not as the main "bad guy" though).