First iTunes sync after restore from backup deletes all music from iPhone playlist

[SheepNutz]

Ok, here's my situation, ever since the iTunes 10.5 final release (I was using the betas before, along with the iOS5 betas and didn't have this issue), after I do a restore from an iCloud backup, when I go into iTunes to sync my music back over from my iPhone playlist, iTunes will delete all music from the playlist while it syncs my movies back over. Before starting the sync, I double checked that my iPhone playlist had all of my music in it, then when the sync was running, I clicked on my iPhone playlist again, and all the music was gone, it's just an empty playlist. Is there anything I can do to keep this from happening again? Would it be easier if I just manually managed my music on my iPhone instead of syncing a playlist of songs over? If so, will iTunes remember which albums I had manually managed when I restore from an iCloud backup? Thanks for any and all help.