First of all, you very rarely ever need to reinstall X-Plane, so please don't ever try that first. :)
If you want to simulate a new install, usually you can move, rename, or delete your entire preferences folder. Running the installer and picking "update" will also check for missing or corrupted files.
Have you tried restarting your computer since the GPU update? You never know what that simple thing can fix.
I use X-Plane windowed mostly, and sometimes clicking out of the X-Plane window and then back in will make the mouse responsive again for me (on Mac).