I think my top Anime would have to be:
1) Akira (I still want Kaneda's bike!) - it's the film that got me into Japanese anime in the first place.
2) Ghost in the Shell
3) Wings of the Honneamise - not technically the best film ever made, but it tries to tell a more emotional story than the usual schoolgirl-in-underwear fare and is almost like a Japanese 1984.
4) Metropolis - ok, maybe not as genre-defining as Fritz Lang's effort, but still a real tour de force.
5) Nausicaa: Valley of the Wind - It's Miyazaki, it's beautiful and it's not as outright moralistic as Princess Mononoke or Spirited Away
6) Steamboy - why? because of the way the Japanese view the English is almost as comically sterotyped as the way they're viewed in the West, but also because I love a good Steampunk story and this is definitely one of those. A real rip-roaring old-time adventure.
7) Crying Freeman - a good idea for the central character premise, although the sequels become awful. The live-action film is actually pretty good, too.
Urotsukidoji: Legend of the Overfiend - because it's the film that (literally) spawned the whole demon/schoolgirl/border-line hentai sterotype that anime is viewed with - not a brilliant story, nor a technical masterpiece, but worth seeing for completeness' sake.
That's my view, anyways...