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In Episode 205 of "The Angry Video Game Nerd" in which the Nerd reviewed Doom, game designer Sandy Petersen claimed that the lack of music on the Atari Jaguar version was due to a monetary issue regarding the game's composer, stating in the composer's contract that he was supposed to be compensated the same amount of money for the Jaguar version as he was for the PC version, despite the Jaguar version selling less copies. Sandy Petersen ended by saying:

"I know that's a shitty reason to leave out the music, but there ya have it."

However, designer John Romero disputed this claim on Twitter shortly after the episode's release, claiming the lack of music was due to a lack of memory and CPU space available on the Jaguar cartridge.
Contributed by Tuli0hWut