1. Merriweather Post Pavilion - Animal Collective
2. Beggars - Thrice
3. Armistice - MuteMath
4. Embryonic - The Flaming Lips
5. Fantasies - Metric
6. Backspacer - Pearl Jam (came out of nowhere and blew me away)
7. Immolate Yourself - Telefon Tel Aviv
8. No More Stories... - Mew
9. Octahedron - The Mars Volta
10. Crack The Skye - Mastodon
11. Alter The Ending - Dashboard Confessional
12. Only Way To Be Alone - Good Old War
13. Black Cascade - Wolves In the Throne Room
14. Wait For Me - Moby
15. The Resistance - Muse
16. Mandala - Rx Bandits
17. 21st Century Breakdown - Green Day
18. Aim and Ignite - fun.
19. The Pariah, The Parrot, The Delusion - dredg
20. Wolfgang Amadeus Phoenix - Phoenix
Honorable Mentions (in no specific order):
-Manners - Passion Pit
-Veckatimest - Grizzly Bear
-The Eternal Return - Darkest Hour
-Never Better - P.O.S.
-Primary Colours - The Horrors
-Monsters of Folk - Monsters of Folk
-Axe to Fall - Converge
-The Great Misdirect - Between The Buried and Me
-Battle Studies - John Mayer
Definitely just an overall best albums list; there's a lot of metal albums, rap, and hip hop albums (and other genre specific albums) I left off... but these are my overall favorites, in general, of 2009.
I should probably go and list my top 10 of each genre when I'm bored haha, but not right now.