The OP didn't mention an AA ff#, someone else did. But the OP should be able to get original routing miles from US and AA miles if he has a ff account with them. Just don't change the ff# with US but rather ask the AA agent to put in your AA#. AA won't know anything about you getting original routing credit from US. As someone else said, the OP can probably get AA miles for the AA flight(s) retroactively but don't let too much time pass - AA's rules would pertain.

Jim