File | User Preferences seems to be the place for removing the beep. Haven't tried it on mine yet.

I'm curious about the repeat too. The IR Database accessed from the Program menu--the one where you bring in whole devices--doesn't have a repeat setting, and neither do the buttons it creates. You appear to only get access to configurable repeat if you drag the button from the IR Database Navigator, and can only change the repeat after the fact if you drag to a macro. I'm curious what devices populated via the Program menu get for a default repeat setting.