trying to navigate a similar situation myself. flew two segments on QR earlier this month --- one ticket purchased on QR website. first segment was a QR codeshare operated by AT (Royal Air Maroc). second segment was on QR. I added my AA FF at time of QR booking. second segment credited within one day. still waiting on the first segment to post... I used this form:
https://www.aa.com/forms/request-fli...les/#!/request to request miles for the first segment. still waiting for a response. hoping this resolves soon, it'll finally put me back to EP for the year