Well, I am a little behind the bandwagon, but I just finished Dr. Horrible's Sing Along Blog, and got some good ideas.
I am going to try and start a webisode, or some sort of animation, or something dealing with a villian/hero complex, perhaps with a twist (if it has been done before, I haven't heard/seen it).
I want it to be regular people with alternate personalities, of course, which are heroes/villians in disguise from the rest of the world. I want the villian to actually be the good guy, the one you feel for, and the one you relate with, and the hero is a pompous jerk. In normal everyday life, the villian is a nice guy, and the good guy is the jerk/bully, and has a slight role reversal.
Not knowing they each have an alternate personality, the villian forms a persona that basically calls for revenge on the good guy, and he retialates, and it seems that the villian is evil to all who don't know the whole story. It escalates, to where the villian commits acts of evil (robbing a bank, murder, etc...) but all of them are for the greater good in his mind.
I think it would be an interesting concept. When I get together with some of my High School buddies, I'll try to film something and put it together.