Johnny Cage is the only character to have all new sprites for this game. This is a result of Johnny Cage's original actor, Daniel Pesina, being fired by Midway sometime after the release of Mortal Kombat II (1993). His new sprites are that of Chris Alexander. However he has lost the splits punch move all together in this version.
The Playstation One version of this game has more characters than the Nintendo 64 version.
All of the levels that featured a stage fatality made it into this game except for the stage fatality featured in The Pit II. Because of the practical impossibility of filming new, extra animations with actors for the non-Mortal Kombat II character sprites for the Pit II's overhead fall, they simply left the fatality out entirely.
This game is basically the same as Ultimate Mortal Kombat 3, but it adds in several more of the older characters and levels.
While the PS1 version of the game has the masked and unmasked Sub-Zero, the N64 version only has one version, which combines the abilities of both versions of the character.