Talk to Johnny at Alchemy Audio, if anybody can pull off this mod it will be him. http://alchemy-audio.com/

Try putting a barefoot button on the switch. They seem to make hitting the switch a lot easier.

I think chords tend to muddy the water, single notes is the way to go. A freeze pedal could be used to freeze a specific note /polytone while you play other notes over the top. This gives you the feel of playing an organ with two hands. One hand holding the chord while playing fills over the chord with the other hand.

My feelings on the organ pedal is you have to get a leslie type rotary speaker sound behind it to get a true organ sound. The Lester G pedal behind the B9 might be what you are looking for..