I also like the one where Bats is trapped in a dream world induced by the Mad Hatter, where his parents are still alive and he never became Batman. Really cool and the beginning of my current obsession with the Mad Hatter character...
I also liked the episode that debuted the character Baby Doll. A really powerful episode. All subsequent appearances made by the character sucked a lot - especially her whole 'love affair' with Killer Croc...