I've often commented on my listophilia but even so making a best-of-the-decade seemed too much. But after reading many such lists I couldn't help it. So a rough list done alphabetically and including only fiction features - these are films that stuck with me for whatever reason.
Before Sunset (Linklater)
Bright Future (Kurosawa)
City of Lost Souls (Miike)
Code Unknown (Haneke)
Decasia (Morrison)
The Devil's Backbone (del Toro)
Donnie Darko (Kelly)
Dracula: Pages from a Virgin's Diary (Maddin)
The Dreamers (Bertolucci)
Femme Fatale (De Palma)
Ghost World (Zwigoff)
The Host (Bong)
I'm Not There (Haynes)
Moulin Rouge (Luhrmann)
Mulholland Drive (Lynch)
Spirited Away (Miyazaki)
Unknown Pleasures (Jia)
Y tu mama tambien (Cuaron)
Beau Travail (Denis) and The Wind Will Carry Us (Kiarostami) are 1999 per IMDB but others are including as 2000 - they would be here. And there must be dozens upon dozens of perfectly fine films ("completely realized artistic accomplishments" if you prefer) that just didn't stick as strongly as the list - from In Praise of Love to American Psycho, Yi Yi to Casino Royale, Battle Royale to Eternal Sunshine of the Spotless Mind.