you see using the Dock as an IR port also kills 2 birds with one stone. The software to run it should work like this...
When an iPod is plugged into the dock, the dock works as it does now... Controlling the iPod with the remote.
When the iPod is physically removed (or dragged to the eject icon on the dock but is still sitting in the dock) the dock should be used as an IR receiver to control iTunes, Quicktime, >>Front Row<<, etc...
Is this possible?