I will update this post with information from different sources regarding this theory including what employees from Pixar itself think of it. So check back from time to time.
The cracked “After Hours” video that inspired the whacky Pixar Theory
Why Pixar Movies Are All Secretly About the Apocalypse — powered by Cracked.com
What do Pixar Employees think of the Pixar Theory?
The Pixar Theory video by blogger Jon Negroni
The Pixar Theory in readable format
The Pixar Theory Timeline