Hi Patrick and thanks for your message.
I feel your pain. The ability to stack MIDI Messages somehow -- starting with the basic case, which is Bank Change->Program Change and ending with your case -- is very interesting to me. For now, this suggestion is noted and on the radar. It's a slightly big deal partly because it requires substantial UI work AND model work to accomodate this. There are also some small snags--what if you receive incoming MIDI data, do I have to check all the messages associated?--which are not insurmountable but a sightly big deal. But that's my problem. Anyway...
One thing that I do, which is also massively kludgey, is to put controls physically behind other controls, or "in front of" them.
Another thing that a user does is to put the hidden controls on the pedalboard (slide up the page).
Again, these solutions are pretty hacky (non-sexy), so hopefully I'll be able to provide a solution for this problem in the next few months.