there is no USB on Mote pHAT, I think you are confusing products, the pHAT is Pi only.
Not that it matters, I had figured as much but be aware of the difference if you contact us in the future about your product, it might not be as obvious to us next time you are not using the Mote pHAT (particularly if you have switched to a Pi by then).
Regarding the demo, it is an executable made from the script in the repo. It is just that, a demo, to confirm there is no hardware failure primarily, I think you can minimize the window to the task bar?
ultimately you are running Python, in a console, so that window will always exist, unless you find a way to code a BAT exe script or something else that does some trickery… I think that’s possible but I’m not a PC guy so can’t really help with that I’m afraid.