Hello Lockjaw,
Well lets check a few things.
First, this may sound obvious but make sure that the batteries are still reading at least half of the maximum level. The unit will start to misbehave if you are down to your last asterisk or 2.
Next, lets verify the binding procedure. The trick is to make sure both pieces are hunting at the same time. Press Shift+battery on the TranzPort remote then "immediately" press the Link button on the USB interface. If the green LED's turn on steady then binding was successful. If not, then there may be a problem, but you should try it again on another USB port too.
If it does appear to bind ok then you should launch SONAR and verify the settings in the Control Surface setup. SONAR has a habit of changing the MIDI port settings if it thinks that all MIDI devices aren't available when it is launched.
Hopefully the problem is something simple. If not, give us any details and we'll go from there.
CS