Well I usually rare candy them up so that I can kill the enemy with them to save time instead of having to switch to a stronger pokemon. If you want get them back to you ask Tangrowth/Bellossom with their moveset I can. It's no problem to me, I just don't want to do anything to them you don't want.
That's what my parents said too about the AP's, and mainly why I want to take them. Though next year I'll have Latin, Lit, Calc, Chem, Physics, and Gov. (If I can I might have to give up a lunch though :/ for the lab periods) AP's also look good for colleges, and I really want to go to Princeton.