So the tracks are there, only waveform pictures missing?
I can't see how the audio interface could have anything to do with disappearing waveforms, tracks or audio. It has no control over creating or deleting SONARs tracks, creating the waveform pictures etc. , AFAIK.
The disappearing of the waveform image does not automatically mean that the audio has disappeared. Did you try playback and confirm that the audio is gone?
The waveform is just a picture indipendently produced, it's not necessary for recording. "Redraw waveform" or emptying the Picture cache file may help, depending on the case. SONAR creates new pictures in Picture cache By restart.