Did you empty the Save folder prior to running FotRSU? The default is "C:\Users \UserName \Documents \SH4", unless you are using MultiSH4. Navigate into the Save folder and delete "data", or go into that folder and delete "cfg" there. Or just delete the whole SH4 folder in Documents. The game will re-create it when you run it again, though you will lose all progress thus far, as well as all of your user settings.