A power controller includes a clock generator, a low-frequency clock generator, and a protection circuit. The clock generator provides a clock signal with a clock frequency for periodically switching on and off a power switch. The low-frequency clock generator provides a low-frequency clock signal with a frequency lower than the clock frequency. The protection circuit includes an over-power detection circuit and a logic circuit. The over-power detection circuit determines whether an over power event has occurred according to a feedback signal controlled by an output voltage of the power supply. When the over power event lasts longer than an over power tolerance duration, the logic circuit isolates the power switch from the clock signal to keep the power switch turned off. The over power tolerance duration is equal to a predetermined clock cycles of the low-frequency clock signal.