Yeah I bought mine from RK during the first re-release as well and apart from a tiny scratch on one of his arms, Prime is seemingly quite perfect in all other ways.
I have a feeling that Target sort of made a deal with (Whoever the wholesaler was) to agree and buy the whole bulk of rejects or something at a way cheaper price hoping that consumers won't realised the defaults. But honestly missing wheels and thumbs are things way to obvious not to realise!