I don't think so. But the priority between savegame, override, .mod files and vanilla files is also different for different file types.
Textures and models for example are not in the savegame and will always come from override > .mod > vanilla. The same goes for scripts, 2da-files and dialogs, while stuff like .ut* files need a savegame where they haven't been loaded yet. Then again .git files are also stored in the savegame but in their case the priority is override > savegame > .mod > vanilla, so placing a .git in the override will actually reset that area everytime you enter / load it.
Long story short, it isn't possible but also not necessary for all files.