Hello,
I'm reopening this earlier post under the recommendation of a technical services agent. Here are our updates.
The DAC2 issues we were seeing in the earlier post were resolved by getting a replacement card. Currently, we have the EVAL-AD9106 configured to use the on-board amplifiers and we have full control of the board through the Arduino with the help of an Arduino library we made. We still source the sinewaves from the DDS so we don't have independent control of the wave frequencies.