I was just thinking about this:
Good Superman Villains: Doomsday, Metallo, Lex Luthor (stretching it in my opinion), Bizarro, Braniac
Good Batman Villains: Joker, Two-Face, Mr. Freeze, The Riddler, Bane
That's five for five. Now, I'm pretty sure we can all agree which set of villains is better. Might I add that I could ONLY think of 5 Superman villains, while I've got tons of other great Batman villains I could list.