Clamp the gates (which is where the RF feedback can be a problem), not an issue obviously in class E.
For a standard sort of class A/B affair I like a turn on the DC injection bifiliar to sense the drain RF voltage, and a set of diodes and caps to sample the gate voltage, feed these signals to some comparators and have them latch a shutdown signal if drain voltage, drain current, temperature or gate voltage become excessive.
Shutdown switches off the bias, and switches on the current to a PIN diode that removes the drive power, you can do this within a ~10us easily.
For the time it takes the protection to react, that is what transient diodes and clamps are for, it does not take much to survive a kW for 10us or so.
Regards, Dan.