I purchased and had the US Gear Unified brake system installed because of reports just like yours with the Brake Buddy. Maybe it's the BB, maybe not. I did not want to chance it. There are other BB reports of locked brakes, flat spots on the tires and other issues with the BB.
Warped rotors can easily be caused when a hot rotor runs through a mud puddle.
I have a temp gun that you just point and click to an object. It instantly shows the temp of whatever you point it at (e.g. Rotors, tires, exhaust, etc). With it, you can walk around the vehicle and check the temp of each within seconds.
Amazon.com: Raytek MT4 Mini Temp Non-Contact Thermometer Gun with Laser Sighting: Home Improvement
This will tell you for sure what your brake temps are at, and provides a real indication of what your brakes are doing or not doing. Excellent for toad and MH brakes and tires.