Launching CDJ on the fly for automation

Has any body worked out the issues of launching the CDJ program from inside another program? My theater control system is PC based. I want to launch CDJ when we want to play CD's. It launches okay, but I can never get it to complete. It loads but often does not load the library. If I pre launch it and deal with it blindly the program using the automation techniques through the SlinkX works fine. The problem is launching CDJ and knowing when it is all done and ready to accept input. I seem to be getting an interaction between the main program that does the launch and CDJ. Sometimes I stay in CDJ never returning to the main program. I am using Windows 95. I monitor it by looking for its window. I find the window (title being cdj.....) so Iknow when it is launched, but I can't seem to put it in a reliable state.