Music randomly disappears during sync with iPhone

When I sync my iPhone with my MacBook Pro, music randomly disappears from my iTunes library. The first time, 100 items "could not be found," then the last time 10 items "could not be found." Songs are still listed in the library, but they will not play and they have an exclamation point next to them. I have everything backed up on an external drive, but it's a pain to have to keep dragging songs back over. This problem began after my most recent OS X update. The items are very random and incude songs purchased from iTunes, songs from CDs I own and "digital book" downloads included with albums I purchased through iTunes. I would very much appreciate any help. I'm afraid to sync music anymore!

Unfortunately, this does not fix my issue. The battery indicator still disappears sometimes (not always) when syncing and I always have the sidebar showing. BTW, this only happens with my 5S not with my wife's 5 or my iPad 3. It used to happen with the 5 that used to be mine until I got the 5S and gave the 5 to my wife. Because of this I think it has something to do with some app I have loaded (but since I have many apps it would be very hard to track down).

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