Thanks for the response Dennis.
The first problem that I originally wrote about was that the readback from the DAQmx in my VI "flickers" between the two signals, indicating to me that perhaps the signals needed to split and re-merged. Using the test function of the DAQmx task manager, the data flow smoothly and simultaneously, but in my VI there will always be, for instance, a changing y-axis in a chart if I set the two voltage signals to different values. Meanwhile, numeric readbacks seem simultaneous, but that is harder to determine.
The second problem (tradition DAQ output and DAQmx input) stems from me reading a post when I first set up that my hardware does not support DAQmx. It is a PXI-6704. I checked this in the LabVIEW help files and this seems to have changed in later versions - although I have yet to make it work with only DAQmx. Whether or not this is related to the first problem remains to be determined. I have also posted a reply on the old post regarding incompatibility between the PXI6704 and the DAQmx to clarify what version they were using.
Brad