I'm guessing here, but did you copy the "persistent" save File from the old saves? I strongly suspect that's where it tracks what you've seen.What I noticed is that if you copy saves and start a new game, the game considers all the text unseen. That's probably related to failing to load a save.
Had to spend a couple of minutes skipping through everything. No big deal, as all the choices are very obvious and straightforward.
Anyway, very nice update, albeit a bit short. But eh, what can you do, those animations and interactive scenes must be a bitch to make.