I don’t believe the TC units can look at audio and MIDI simultaneously, and to be honest, the audio in chord recognition is designed primarily for either a guitar or a piano, relatively simple waveforms with no unpitched information. Feeding it a complete mix with drums and percussion not to mention passing notes and chords the style may have isn’t all that good at generating nice clean tracking.

It might be interesting to disconnect the audio cord and see if things still work well without it (if you’ve set up the correct MIDI channels from your chording hand). Or pull the MIDI/USB and see if just tracking audio gives you a lot of glitches.

Either I’m reading this wrong, or it seems you’ve sacrificed one whole side of your stereo mix to control the harmonizer. Even if you’re running mono, the effects and stereo panning of internal drum kits means you need to get both sides to the mixer.