I took my car in to the dealership and requested a system wipe and reinstall, since my self-upgrade attempt had frozen. The dealership didn't do as I asked -- they just verified that the system appeared to be loaded and working correctly.
I was able to show them where my current gen iPod Touch didn't sync or index correctly (unknown artist/song but album art is displayed), and the other anomalies are random, I can't reproduce them on demand.
I regret buying the MFT option. It's been a huge disappointment and a waste of my time.