That's what I had in the snap midi to chords script, you can set the ignore range for keyswitches.
You could have an empty track as the midi chord track and Re-route that to the Kontakt track that has the keyswitches.
I tried putting the keyswitches on another channel on the chord track but as you generate a new chord track it deletes them.
So you just need to copy the switch notes from another track to the chord tracks before export, or solo both chord and keyswitch tracks then drag Master to MID and you will get one midi file with chords and switches.

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