This may change after I see Wolf of Wall Street and American Hustle. That being said:
1. Gravity - basically renewed my faith in cinema after an atrocious year of movies. Astounding.
2. Upstream Color - Was sure this would be my #1 until Gravity hit. Carruth is a master at short-hand visual storytelling. Hypnotic, beautiful, seen it 6 times and can't wait to watch it again.
3. Europa Report - In many ways this is the hard sci-fi movie I've always wanted to see. Smart characters, accurate science, just an interesting what-if that makes the most of it's smaller budget. Great score too.
4. Fast & Furious 6 - best action movie of the year, also the best superhero movie of the year. This movie incorporates character development into its action scenes better than almost any big budget series out there.
5. Riddick - Awesome piece of R-rated sci-fi action. First 1/3rd in particular is amazing, some of the best stuff I've seen this year. It suffers from starting out original and great, and then getting more and more conventional as it goes along, but it's still solid. Kind of this year's Dredd, though not quite at that level.
Honorable Mention: Oblivion as the biggest surprise of the year, and being waaay better than it had any right to be.
Worst:
1. Star Trek Into Darkness
2. Red 2
3. Pacific Rim (seriously internet, WTF)
4. Elysium
5. Man of Steel