It looks like the fuse settings are incorrect, resulting in setting XCK clock output on enable pin 6.
If you program with Arduino IDE, simply run a "Burn bootloader", or program it manually: avrdude -c avrisp -b 19200 -P /dev/ttyACM0 (or: /dev/ttyUSB0) -p m328p -e -U efuse:w:0xFD:m -U hfuse:w:0xD6:m -U lfuse:w:0xFF:m -U flash:w:R1.02j.hex
Hope this helps. Would you like to document your QCX+ modification when you get it working? Thanks.