AA staff are not trained to understand such issues, unfortunately.
with CX, the specialists usually would take care of everything (you communicate via fax/phone with them first), and leave a note in the airport. it still takes close to an hour, but that is still great improvement over your 3 hour benchmark.
did you try to sort everything out with RTW desk, ask them to put this as a note to the agent who does the re-issuance? the first thing the ground staff does is call the fare center, she would then see the note immediately. i hope this would speed up the process a bit, but not sure?
dbala, i think the best way to tell AA is to also fill their feedback form on the web.