No, probably won't do that. I WAS originally planning to join all the games up into one big thing once they were done (that's one of the reasons Haven is structured like a "hub"), but seeing how big GT got, and the limitations of RPG Maker, that's no longer planned. There's probably a fancy literary term for what the early bit of the GT story does, but that's entirely intentional. You start out thinking you're AFTER the events of the first game, only to realize you're briefly BEFORE them. I like the little "Oh wait-" that causes.
How so? If you're wondering why they don't appear in the special scene, they aren't needed now. They were a training device. If you allowed them to do their work in CS1, the effect is permanently etched in Mezz's mind now. Thankfully it only applies to boars, and possibly even just THOSE boars, that particular gang.