I had the same problem today, with only one project so far. I know I could see the waveform in track view after I recorded it yesterday, but upon opening the project today, there was just a straight line in the track view. I could still hear the audio on playback, but just a straight line as I've said. Pointing the picture cache to D: drive in preferences solved the problem for me as well. Audio was visible again after restarting X3. Thanks to soundsubs for the fix.
P.S.: I also save my system files on C: , and my audio on the D: drive.