The IEPE excitation will be applied when the task is committed. After you have set the timing, you can perform an explicit commit on the AI task, and then wait for a few seconds (however long it takes the sensors to settle) before starting the task. The attached example shows how this is implemented with the DAQmx VIs. You can add your additional logic to only perform a wait on the first run of the VI or after IEPE has been turned off (different task that does not explicitly maintain IEPE on those channels, power down, etcetera). As your experience indicates, you do not need to wait for IEPE and AC coupling to settle if they are already enabled when you initialize your measurement task.
Doug
Enthusiast for LabVIEW, DAQmx, and Sound and Vibration