HI Karl,
The whole thing is just a starting point, it's not step-by-step instructions. If you don't have any experience with Arduinos when you start, you will by the time you are done!
The first thing I would look at is using a different display, The Adafruit unit is nice but it's very expensive. Maybe a unit from BuyDisplay.com would be a good choice.
I know that Bill has implemented protection software for forward and reflected power and we also talked about measuring the DC input power and comparing it to the RF output power that way the system can find internal faults like the wrong filter selection or a bad cable without damaging the MOSFET.
73,
Jim WA2EUJ