Well, this is strange, the settings should be automatically saved each time you change anything in options. So this can signalize there is a problem in loading or storing the settings. If you want to help me troubleshoot it, you can run modrana from the terminal (just type modrana in the terminal) and copy the output after a crash/settings not saved/other bug.
Clicked, sending set:layer2:vsat|options:save|set:needRedraw:1 saving options Can't save options