Can I output two different arbitrary waveforms with an SDG?

Yes.

Two-channel SDGs (SDG1000X, 2000X, and 6000X) can output two separate arbitrary waveforms.

1. Load the waveforms into the instrument
2. Select the channel you wish to load to and then press Save/Recall
3. Select the arbitrary waveform you wish to output for that channel
4. Repeat steps 2-3 for the other channel
5. Enable outputs

Here is an example of an SDG1032X with two separate arbs: