When you are ripping the disc you should have the option of choosing which audio tracks to select for the rip. Just make sure you choose only to keep the DTS or Dolby Digital track. Nero recode might be another option because it will analyze a disc let you know all the available audio tracks on the disc and you can pick and choose which you want to keep very easily. Also, I know AnyDVD will rip the original audio files as I have seen it done before.
This shouldn't be caused by the compression as the audio and video are compressed separately. Have you tried selecting a different audio type while the disc is running on the ps3? Maybe for some reason stereo is selected automatically and it need be switched to the other formats.
Also, have you tried putting these discs in a different DVD player and seeing what happens (also possibly trying to switch audio formats)?