Man, I have this same problem most of you have and it's really the only problem I have! Hopefully there's a fix soon. I'm lucky enough to be able to use Helix Edit on stage while I play, so if it gets confused I can fix it easily enough, but I'd rather not have to even think of it. My Wah sometimes switches to Expression 2 and then my Volume goes to Expression 1. When it's supposed to be the other way around.
I'd also like one more feature on the scribble strip above the pedal instead of displaying Expression 1 and Expression 2 at the same time, let us have the choice of only displaying one or the other according to which state it is in. I know one can change the name of what it displays, but it changes it for both, regardless of which state it is. I'd like it to display Wah when I'm on Expression 1, and then display Volume when in Expression 2.