Are you using Full Disc or Clone?
I have found that discs I have quite happily backed up on earlier versions (v5.1.?.?) using Full Disc no longer work when copied with v22.214.171.124 or v126.96.36.199.
However I have found that the Clone option works everytime. As an experiment I copied Red Dwarf Series 1 Bonus Disc (as its a single layer) onto a rewriteable. The Full Disc did not work (tried it on 3 different DVD players - keep getting unrecognised or incompatible disc) however the Clone option works fine (on all 3 players).
Examining the Original and Full Disc showed that the VOB's on the Full Disc were larger than the original DVD and one VOB was missing entirely. The size of the VOBs on the Clone matched that of the original.
I have tried mailing tech support (even zipping up the IFO's from the original, Full Disc and Clone and providing a directory listing detailing the file sizes of the VOBs) however I am not having much luck.