Bug report:
The mod consistently affects the deployment of symmetrical control surfaces, reversing the normal direction and blocking the port side almost completely (it does move very slightly). It does so on both career and sandbox mode, even to the stock planes (as depicted below).
Windows 7 64-bit; fresh KSP 1.1.2 x64 vanilla Steam download modded with only Module Manager 2.6.25 and Atmosphere Autopilot 1.5.3 installed from CKAN.
Onward to comments and well deserved praise: although the GUI opening sequence is a bit ungainly, this mod is actually easy to use, being capable of handling every unstable bumblebee I threw at it. Furthermore, the standard PID settings are so responsive that I found it quicker to activate the mod to pull out of a stall-induced spin than trying (and usually failing) a PARE manoeuvre. The one second delay on typing strikes me as a good idea, though.
BTW, congratulations on your graduation!