The noughties wasn't the best of decades for movies. Personally I found the 80's/90's had far more greats.
All this non stop CGI rubbish from most of the major blockbusters was a huge let down, Transformers springs to mind. I enjoyed the Animated movie more.
However there were some good ones, highlights include:
Finding Nemo
Batman Begins
Gran Torino
Sin City
Up
The Lord of the Rings Trilogy
Donnie Darko
Oldboy
Infernal Affairs
2000- Requiem For A Dream
2001- Amelie
2002- 25th Hour
2003- Lost In Translation
2004- Million Dollar Baby
2005- Capote
2006- Little Miss Sunshine
2007- The Diving Bell And The Butterfly (Le Scaphandre et le papillon)
2008- Let The Right One In (Lat den ratte komma in)
2009- The White Ribbon (Das weisse Band)