I have the same issue. When scrapping, either one game or one system, it no loner saves the results. I successfully scrapped snes, fba, genesis, but NES never saves the results after a reboot of my RPI2. Possibly related, maybe not, but when I use the GUI to change my wifi info it also doesn't save after a reboot. Manually editing the cfg file does work though.   I'd like to edit the gameslistxml file but it doesn't appear to be accessible from windows either via samba or directly reading the memory card. I also cannot exit to a command prompt although I can connect via putty.