I know why Sonic doesn't show up right. It's because the invisible parts use multiple textures. I think it's causing Brawlbox to freak out, since it's not supposed to handle that.
On the subject of Ridley, I tried putting him in place of shiek, and he turned out invisible. Not sure why at all.
Also, could someone else try messing with Lucario's running animation? I gave it a try and it resulted in him moving irradically even though I didn't remove remove frames or mess with TransN. Edit: NO, it's not the normal movement glitch. He runs normally, stop for a second, then continues.