Fred,
Have you contacted MileHighWings with your question?
From your description, it sounds like you haven't configured channel re-mapping in these sims.
In FMS, go to "Controls/Analog control..." menu and select "Joystick interface". Then click "Mapping/Calibration" button and the "Mapping/Calibration" window will pop-up. In this window, click "Calibrate" button and follow the instructions (move all sticks slowly, click Next, center sticks, click Finish). After that, you should be able to see bars moving as you move the sticks of your transmitter. The last remaining step (which you have probably missed) is cahnnel re-mapping: move each control one-by-one and notice the corresponding bar number, e.g., Rudder stick moves bar# 4. Then, for each channel, write the bar number to the Channel column in the Mapping area (left side of "Mapping/Calibration" window).
Similar, though a little less intuitive, re-mapping procedure should be performed for RealFlight.
If you e-mail MileHighWings, they will be happy to assist you with step-by-step instructions.
Keep 'em flying,
Boris