Well, I'm not exactly sure where to start.... I've only played with the one we have here a couple of times, and the only thing I've had to do each time is re-load the application.
What happens on our machines, is the "loaded" application gets wiped from memory, and the "default" application is the only thing loaded. Does that sound like what is happening where you are?
Maybe someone else has more experience in them, but as far as I know there isn't a generic application for these things... The SOT program is written specifically for each machine. If the application has been wiped, then you'll need to either locate a copy of the program and put it back into the SOT, or you will have to come up with some way to write it from scratch.