I know the midi through works great when just using the traditional midi connections. I had mine set up like this for a few days when I got a new synth a few months back. Never tried to pass info between the 2 protocols though. (5 pin <=> usb) I use both usb and the 5 Pin, but they are doing very different things. The usb connection is only communicating with the Sound Tower stand alone editor. The 5 pin is handling all note data, clock and automation parameters. After some initial trial and error this setup has been flawless. This is how all my synths with usb are setup come to think of it. Sub37, OB6, Integra 7 and the JD-XI. USB for editors, 5 pin for midi notes, clock and automation. Works perfectly.