That definitely sounds odd. My first inclination is to check whether the pedal is in kill-dry mode. Go into the System Settings and make sure it’s not in one of the three kill-dry modes. Please report back and we’ll try something else.
So, I will try to do the system check and disable the kill dry mode if that’s whats going on. I’m guessing I should select the “buffer” mode, for just regular pedal operation. I’m going guitar>pedals> JC40.