Bought my '13 5MT Hatch with 6 speaker Sync with My Ford on 09/08/2012. Ran the gamut of problems that have been reported within this thread. Tried the usual fixes--master re-sets, updates at my dealer and an exorcism, but the problems just kept coming back.
On my 4th or so visit, the service advisor suggested replacing my Sync module with a new one, with a FREE loaner thank you. So I am now rocking "Sync VersionGen1 - V4.1.2.F", according to the info about my car on the Ford Owners Page.
She (the "Sync say a command" person) seems to handle my southern accent without problem (Siri, take a lesson!) and best of all she handles my "Mobil Apps" requests flawlessly.
I really think the Sync person on the original module was censoring my music choices and playing what she wanted to hear, instead of what I wanted. Every once in awhile, I want to hear Abba--not that there's anything wrong with that--every time she would play Talking Heads.