How do you have your desktop setup?
Can you provide a pic of your VMMaker setup screen with the screen rotation options.
When trying to get this right, it is best to start with a "blank slate", with all options left at default in mame.ini.
So, delete your mame.ini (you can make backup if you really want) and type "mame.exe -cc" from the CMD console to re-create a default mame.ini. I think mame automatically creates one on startup too, but I always do it from the main console.
Then:
- Run VMMmaker.exe and do your monitor rotation setup.
- Ensure you have the right mame.exe file selected (on the last tab), then
- Click "OK" and you'll see a message (in vmmaker's little console window) about exporting settings to mame.
This updates your mame.ini file.