I've got Point Motivator to run on startup (apparently it will then be in the All Users-startup. Should preferably be in Current User, IMO), and I then keep it running all through my logged on session. But I've noticed that it seems PM doesn't save its settings if I log off while it's running. It doesn't lose any records or anything, but the options aren't saved. I need to close PM manually to keep any changes to the options.
Can anyone confirm this? Try to change the setting start minimized to the opposite of what you've currently got, then log off and log in again and see if Point Motivator has saved your setting. Thanks.