Well, today we received an email offering a brief apology / clarification, and it's certainly one that should be shared with anyone who's been following this story:
"In trying to make a broader historical point about the range of atrocities the Germans committed against many people, I made a clumsy association about the Holocaust, for which I am sorry and I regret. Jews obviously do not control media or any other industry. The fact that the Holocaust is still a very important, vivid and current matter today is, in fact, a great credit to the very hard work of a broad coalition of people committed to the remembrance of this atrocity - and it was an atrocity." -- Oliver Stone
So there you have it. Speaking only as one opinionated Jewish guy, that explanation is good enough for me.