There are still tons of valid flights or itineraries that will not show up on AE. I just booked BRU-fra-MEX CUN-yyz-fra-BRU in C. The BRU-fra-MEX was showing up but there was no way to get CUN-yyz-fra-BRU on line. However, as KVS tool was showing all flights available in C, I called, paid the $30 service charge x2 +Tx and got what I wanted.
About a week ago, same situation with CDG-NRT on NH. AE site was suggesting CDG-yyz-NRT, nice for a milleage run but no thanks for an award. KVS was showing availability for the NH direct flight CDG-NRT.
AE should outsource its web site to KVS!