Off the top of my head?
Atari Anniversary Edition (I love these things

)
18 Wheeler: American Pro Trucker
Capcom vs. SNK: Millenium Fight 2000
Capcom vs. SNK: Millionaire Fighting 2001/Mark of the Millenium
Charge'N Blast
Confidential Mission
Dynamite Cop/Deka
Garou/Fatal Fury: Mark of the Wolves
Giga Wing
Giga Wing 2
Guilty Gear X
Gunbird 2
Gun Spike/Cannon Spike
Heavy Metal: Geo Matrix
The House of the Dead 2
Ikaruga
Jojo's Bizarre Adventure (This is both CPSIII
Jojo installments on one GD-Rom)
The King of Fighters: Dream Match 1999
The King of Fighters '99: Evolution (the '99 is
dropped in the US release)
The King of Fighters 2000
The Last Blade 2: Final Edition/Heart of the Samurai
Mars Matrix
Marvel vs. Capcom: Clash of the Super Heroes
Marvel vs. Capcom 2: New Age of Heroes
Midway Arcade Classics Volume 1 ( Sinistar <img src="graemlins/drool2.gif" border="0" alt="[Drool 2]" /> )
Midway Arcade Classics Volume 2
Mobile Suit Gundam: Federation vs. Zion and DX
Namco Museum
Power Stone
Power Stone 2
Project Justice
Q*Bert (Updated game with the original included)
Soul Calibur
Spawn: In the Demon's Hand
Star Gladiator 2: Nightmare of Bilstein
Street Fighter Alpha 3
Street Fighter III: Double Impact (New Generation and Second Impact on one GD-ROM)
Street Fighter III: Third Strike
Super Street Fighter II X
Twinkle Star Sprites
Vampire Chronicle (Vampire Savior with elements of the previous two Darkstalkers games thrown in)
Virtua Cop 2
Virtua Tennis
Virtual On: Oratorio Tangram
Yu Suzuki Gameworks (Multiple arcade ports along the lines of Space Harrier and Outrun)
Zero Gunner 2
Zombie Revenge
*That Centipede update was released on here but I'm not sure if it includes the original game.