I know this is an old thread, but for anyone with this issue who’s arrived here, you need to open the VPC Configuration Tool (red icon) and select your throttle. In the list of axis, double click the throttle axis rX and set the Inversion check box, then do the same for the rY checkbox. rX should be False and rY should be True. Once done, click the green button that says “Save VPC Device”. This will fix it for you. Note that you’ll have to change the inversion within any other sim’s bindings (DCS, IL-2, et al) that you may have already setup.
Hope this helps someone.
Can confirm this works.