Best Transition from one song to another.
 

As of right now im gunna go with from Son et lumiere to intertiatic ESP
(The Mars Volta)

Judas Priest - Hellion to Electric Eye.
Tool - Parabol to Parabola.

Pink Floyd - Us And Them to Any Colour You Like
Led Zeppelin - Heartbreaker to Living Loving Maid (Shes not a woman)

Kanye West-Wake up (intro) to Heard Em Say. Just. so. cool.

I am going to get hated for this but...
Green Day- Brain Stew to Jaded

David Holmes - Incite A Riot / 69 Police / Out Run

Mmm, yes.
Uh... Bring the Boys Back Home into a little bit of Is there anybody out there to Comfortably Numb. :)

My Chemical Romance: "The Ghost Of You" - "The Jetset Life Is Gonna Kill You"

Journey ~ Feelin' That Way into Anytime
Thin Lizzy ~ The Cowboy Song into The Boys Are Back In Town (from the Live and Dangerous cd)
KISS ~ Detroit Rock City into King of the Nighttime World

Agree... they perfectly fit together.

Judas Priest - Hear Come The Tears into Dissident Agressor
Judas Priest - Between The Hammer And The Anvil into Touch Of Evil
Iron Maiden - Ides Of March into Wrathchild

The whole Dillinger Four VS God album is full of great intro's and outro's

The Natural Born Killers Soundtrack has quite a few as well

Queen - We will Rock You

Let it rol -> HyperGeek - Devin Townsend

My Bloody Valentine's album Loveless is full of them.

id say pink floyd did a pretty good job between brain damage and eclipse.

that and tool and the mars volta transition their songs really well.

Amen to that.....with the pink floyd and The Mars Volta aspect...
EDIT:Not familiar enough with Tool

if you want, i can send you "lateralus". that album has a few good transitions.

Maybe another time....as of right now im downloading a bunch of albums so it will go slow