After AOR you will get refund only COPR fee. I don't think you will get $1000 refund.Apply EE and let those applications go simultaneously, if you withdraw the paper based, you’ll have $1000 refund, if you let it continue, you’ll still have $1000 refund in the end when other application get PR. So, doesn’t hurt.
@Sandynguyen and I have both Pr paperbased and ee going at the same time.