AnimeMusicVideos.org

Melancholy of Haruhi Suzumiya.
End of Evangelion (Some of it sounds like something my demented mind would make up.)

lestheanimesarge wrote: I think Stargate would be cool done into anime. The licensing though would be astronomical.

There is a Stargate game for the SNES that is anime-style. It was done for the original movie though, not the series.

There is not a Stargate Atlantis/SG-1 anime though.

I'd say Neon Genesis Evangelion.