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I found a few more bugs/oddities, these ones are around the Lake of Rage.
1) The first trainer on the path heading to the lake from Mahogany has a Sandshrew that knows Fly. Someone posted this before, but I don't remember if they said the specific trainer.
2) The Fishing Guru is a bug catcher...
Oh wait, I've got something. After beating Morty, the old man outside the building that leads to Tin Tower gave me an egg and thanked me for saving the city. I don't think I've done anything of the sort, unless gracing them with my presence was so great for them.
I must say I'm loving this hack! It's great how you managed to use remixes of all the old G/S/C music, though the new Route 1 track scares me.
I found a bug in the beta (you might already know about it, or maybe it's supposed to be like this, but here you go anyway): The guy who sells stones in...