I try to reinforce that. It drives Jr. nuts, but I insist that he's the one to feed the dog and take him out when he's home.
As for the crate thing, no he won't make the connection. By the time he gets to the crate he won't remember we have a couch. But if we reinforce him staying off while we're out, he won't regress when we're gone if he's in the crate.
Actually I don't mind him being on the couch as much as I mind him getting an attitude when he's told to get down.