After having spoken with Brian and Ethan, here is how I propose we set the bracket. I think we can come together on 32 movies that we all want in the bracket. From there we should fill some niches like comedy, action, and classic movies. I think that the best of the classic movies (I suggest four) are worth at least discussing. Next, and this is really the part that will make this possible, is that each of us gets four spots in the bottom half of the rankings to put movies that we feel are neglected or that should have been agreed upon but weren't. As examples, Brian will pick his favorite movie Brokeback Mountain, Ethan may pick a movie like the Fountain, and I will likely pick Magnolia, which is my favorite movie. This will add some variety but will make figuring out the top 32 easier because if there is a disagreement, one of us will have to be willing to put as disputed best movie as one of our four wild card spots. Last I have suggested four shout-out spots for movies that are going to be facing the top four movies but might as well be on the list. I am curious to see if we can agree on the Goonies in the top 32.

This is still a rough draft, and is meant mostly to illustrate how we should hash this out.
(In descending order of seeding 1 through 64):

32 movies we three agree on:
Godfather 2
Braveheart
Godfather
Fight Club

Eternal Sunshine of the Spotless Mind
Apocalypse Now
Shawshank Redemption
Tombstone

The Royal Tenenbaums
High Fidelity
Pulp Fiction
Unforgiven

The Lord of the Rings
Last of the Mohicans
Glory
The Good the Bad and the Ugly

Jaws
Reservoir Dogs
The Matrix
Star Wars

Empire Strikes Back
Tron
Blade Runner
Sunshine

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8 best comedies

Monty Python and the Holy Grail
Life of Brian
Office Space
Anchorman
Ferris Bueller's Day Off
Waiting for Guffman
Spinal Tap

Tommy Boy

4 best action movies
Die Hard
True Lies
Terminator 2
Predator

4 Classic Movies
Citizen Kane
Casablanca
Lawrence of Arabia
Ben Hur
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4 wild card picks by Brian
The Little Mermaid
Brokeback Mountain
Y Tu Mama Tambien
The Devil Wears Prada

4 wild card picks by Ethan
The Fountain
The Planet of the Apes
Major Payne
Red Dawn

4 wild card picks by Taylor
Magnolia
Thank You for Smoking
V for Vendetta

4 shout-out random movies
The Goonies
Napoleon Dynamite
Young Guns
The Money Pit (mostly so we can debate the Godfather versus the Money Pit a la Family Guy.)