I don't know if this question belongs in this forum but maybe it is related to the bootleg? After leaving Midgar for the first time and going to the small town near Midgar for cloud to tell his story, during the flashback when the train gets attacked by a monster and you fight it with Sephiroth; I cannot get past this point because Sepiroth's attacks keep missing!?
Something to try with that is reinstall it, without bootleg. Using your old save file, you can continue from your recent save and get to that point, see if it was Bootleg or if it was just something else wrong.
Kind of a roundabout way of figuring it out, but being a tech major, I've found that the surest way to figure out the problem of something is to remove one thing at a time until it is solved.