I'd have to say:
*Cats Don't Dance: This one got royally snubbed by the animation company going splat after it came out. Interesting story and characters, and a bunch of the frenzied, sharp humor that Warner Bros. was known for in the 1990s.
*Fern Gully: What can I say, I love bats. (Not as much as my favorite animal, otters, but how many animated otters are there?) That, and it's not overly heavy-handed with its environmentalist message.
*Secret of NIMH: I loved the story when I read it in grade 5. We also saw the movie and I loved it too. I'm a sucker for anthro animals in general, but I find that premise even more interesting in how it contrasts with the human world in this story.
*The Emperor's New Groove: It's got David Spade, who may be one of my favorite "one-note" actors. He always plays the sarcastic jerk, but always makes it work well. That, and it's a ton of fun, with fourth-wall gags out the yin-yang and an "attitude" that never seems forced.
*The Brave Little Toaster: Do you get the feeling that I like kids' movies that are a little darker than Disney? The story line's been done before to at least some extent, but it's so well executed that it doesn't feel clich