I managed to get all this working in Usine on Windows 10. I love this program.
The footpedals (Keith McMillen 12step and Softsteps) are programmed to send notes to the computer. The MIDI notes are read by the InsertPiz MIDIChords .vst which transposes them to pre-set chords and all that data is sent to a virtual MIDI bus. Then Dune 2 gets MIDI info from the virtual MIDI bus and so each time I press a footpedal button a chord is played. Then on a different track I have my EWI synth patch which reads MIDI-In from the EWI only. That way you can solo over the chords with the wind controller and trigger the chords in real-time. I had some bugs in it but managed to update a few software things and now it all works!
Here's a link to the video: https://www.youtube.com/watch?v=57Ve-bcv8yg
Thank you Sensomusic.