Chris
Just had a look at my planetarium with EQMOD in simulator mode and both LST's were concurrent.
I then changed location using the options settings [simply changing E to W] and the LST was considerably different as it should be. I agree with Andrew's comment regarding a location mismatch.
This leads me to the GPS issue. If you haven't used the GPS for a while the almanac will be outdated. I suggest putting the unit outside and letting it acquire as many satellites as it can and then allowing it to run for at least 20 minutes to update the almanac.
Also check your location details in your planetarium and computer match.
You can also check your LST
here
Chris