just responded to a similar question on the steam forums, so I'll paste it here;
ok, wipe everything clean and start over, and once you have the game cleanly patched with
T2Fix again, go get the latest ready to go package from the bottom of the first post
here (see "standalone FMsel compatible T2x package") and load it per instructions. I would recommend going straight for the NecroAge version, it neatly eliminates the sometimes less than ideal texture work of the vanilla build.
also check the few available extras (same google drive folder as the T2x base build), like interactive candles, safe4work, and enhanced skies (ignore the water though), those can be loaded as mods using the modmanager that was installed by T2Fix.
you also may want to update the contents of your T2FMDML folder if you want to be sure your fan mission fixes are up to date, go
here to get the latest zip (click Code/Download ZIP).
and the NecroAge build is superior to the hdmod version, imho.