Do you connect to your pedal via MIDI dins or USB? If you use USB, MIDI dins will be ignored and I think you can still use USB to sync MIDI clock while using H9 Control.
I initiially had both usb & midi dins connected as I was trying to sync the midi din clock to one of my synths but that was causing a lot of my problems I think. I’ll try it a few more times.
I’ve tried running H9 Control & Reaper(DAW) but Reaper can’t seem to access the timefactor midi device when H9 Control is open. Not sure if this is just a Reaper issue or whether other DAWs would have the smae issue accessing the USB midi?