I feel bad when they have to be in the crate too...but I make it really cozy and give them a treat so that they like to go into the crate. I have only had my two a week and they don't even cry when I put them in their. If you make it "den" like they will want the quite peaceful rest.
I am training mine to go pee outside...right now at 11 weeks were are about 50-50
Thats okay I know they will get it in time!