what kind of connection from the radio to the computer do you have? if your using an audio cable to connect the radio to the computer, the cable is connecting the radio's discriminator tap to the computer's line in jack (Not the microphone)
fixed sorry about that lol didnt realize that it was set that way. thats my scanner in the back ground running the audio but you can still hear the choppy audio
reconrider8 - can you post a sample of the raw data you are receiving to say zippyshare, for me to have a look? To capture a raw sample, you fire up DSD+, then in the command line window press "r" to start capture, and "r" again to finish.