...Honestly? I'd probably be the equal of a Nazi Scientist on that universe doing unethical things. I actually wrote a horror fanfic about it.
I'd love to crack open a blastoise and finger out how a biological being evolves to have fuckings MACHINE WATER GUNS in it's back. I'd also love to detangle a tangla. Ya know, FOR SCIENCE!
Beyond that? I'd also probably take up hunting. That's not to say I'd kill every pokemon, no I'm sure I'd keep a few myself as pets, but in my mind the pokemon are half-way sentient (and they have super powers) so it is in no way cruel or mean to hunt them for sport.
The only thing I wouldn't do is create a website based around human/pokemon porn. I'd consider it, mind you, but ultimately THAT is too weird.