Like zone said, the 3d look (aka depth) is from the way I shaded them. I'll show a step by step for my next few sprites so you can see how I pixel my sprites.
@Belzeebub: Yeah they're loosely based on the 3 starters, a reptile, a fishy-thing, and a CHICKEN!
I'm glad you're enjoying these, that helps encourage me to make more =3. I think I'll do a normal pokemon and then a snakish one next (after I fix that chicken...bird...like creature first)