For the moment I don´t mind to lose personalized rooms, so when I want to do a clean install I do the following :
1) copy shortcuts.ini from folder "C:\OpenToonz 1.0 stuff\profiles\layouts\OpenToonz.user" to a temporary place.
2) Uninstall Open Toonz
3) Delete C:\OpenToonz 1.0 stuff\ (folder and content)
4) Install new version of OpenToonz
5) Move shortcuts.ini to folder "C:\OpenToonz 1.0 stuff\profiles\layouts\OpenToonz.user"
6) To have a complete menu, On OpenToonz create a new Room, change there some name to be sure it will be saved.
Here there are ppl that can explain you how to keep rooms as I do with shortcuts