Right, so this is slightly annoying.
It seems that when I play a PS2 back-up it stutters during any FMV sequences, regardless of the game (So far I've tested Digital Devil Saga, Final Fantasy X, and Metal Saga), but the in-game cutscenes (as well as gameplay) seem to work flawlessly thus far. My PS2 is v12, I'm using real TYG02 DVD-R's, and I've burned multiple copies of said games with Nero, ImgBurn, and DVD Decrypter in my external Mad Dog 16XDVD9A2 (NEC 3520a, I think?) at various speeds ranging from 2x-12x (with 4x seeming to be the best), and yet the problem still persists in all of my copies.
My PS2's laser seems to be working well, has no issues with the originals (and seems to be working grand all around with movies, PS1 games, etc.), and was even cleaned, so I doubt it's my system. And, as I said, the DVD-Rs are genuine Taiyo Yuden. All this leads me to believe it's my burner, but I've never had any issues with it before, it has the last Mad Dog firmware for it, and burns DVDs complete that verify just fine, so I'm not really sure what the problem is. I thought maybe it was my boot method (FMCB with ESR) but that's highly doubtful, too.
Anyone care to throw in their two-cents?