Hmmmm. Its a little more work for you, but if you don't mind I kind of lean toward system 2. I honestly don't think you'll have to worry about anyone abusing the system, but I'm fine with the level limit. I can also accept that some pokemon are just stronger though, lol. Like in your example, Mimikyu [i]is[/i] a pretty strong pokemon and is a single stage, so having a stronger tier move makes sense. 

And I have no strong feelings about pokemon cries. I usually go with the latter though.

Aaaand as for my character, thank you! I will add him to the tab soon, just might make a few small changes (which I will let you know of course).