I attempted to move my iTunes music to my local server due to a large number of iTunes U podcasts. When iTunes got confused as to where the iTunes Music (also known as iTunes Media in iTunes Preferences - Advanced Pane) was, I moved eveything back to my MacBook Pro. Now my iPhone will not sync new or upgraded applications to my iPhone. Contacts, photos, books, movies, are not a problem, just apps.
I have looked into the iTunes.plist file and could not identify any path only used by apps sync. So I would appreciate advice on how to proceed to resolve this matter. I would prefer that iTunes Music resided on my server, but I can live with it on my laptop.
I fixed this.