you may want to go to the web admin, wizard, media directors page, and set the IR transciever for your media director, there...
however, I highly recommend getting a USB UIRT. it is plug and play, and has learning capabilities.. an IRTrans USB transciever is also another good option.
also, you can install the orbiter software on any windows system, or use the web orbiter to control the system. If you have a PDA, install onto that...etc.
If you have a supported cell phone (Symbian, Windows Smartphone, java-based) you can also install the orbiter onto it and use it as a remote.