First of all never use MIDI in OMNI in your Rackspaces, rather use the MIDI in blocks of your keyboard controller. I noticed that you use different channels on your keyboard controllers (ch1 and ch2), this is not usefull and there are even plugin not responding on channel 2, so take care.
For what you want to do I would define my keyboard controllers in Rig Manager as keyboard1 and keyboard2 (or whtever you want) as well as all the MIDI controls available on these controller.
Then use MIDI learned widgets and host automation to control your plugin and not MIDI. All this will make your life much easier. 