1. Toy Story 2
2. The Incredibles
4. Toy Story
5. Monsters, Inc.
7. Inside Out
9. Toy Story 3
10. Finding Nemo
11. Monsters University
14. The Good Dinosaur
15. A Bug’s Life
16. Cars 2
Not ranked because not yet seen: Brave. But I can pretty much guarantee it’ll get a better ranking than Cars 2 (Update 12/7/12: Finally saw Brave and would slot it in between Finding Nemo and Cars).
Update 11/6/14: Updated to include Brave and Monsters University.
Update 7/4/15: Updated to include Inside Out.
Update: 4/11/16: Updated to include The Good Dinosaur. Also, you should assume for the future that I will update to include future Pixar films after they come out, uuhhhh, eventually.
Also note: The quality decline from position one to position four is negligible. Positions five through ten additionally exist on a similarly marginally graded plateau a small drop below the first. Positions eleven through fifteen are on another plateau a larger step down, and Cars 2 exists in a place I prefer to call “The Dreamworks Trench.”
Your thoughts and personal rankings are invited in the comments.