In this thesis we propose a robust PID controller to regulate the hydrogen flow of proton exchange membrane fuel cells. The controller allows the so-called hydrogen excess ratio to track a desired value rapidly in order to achieve saving hydrogen and to avoid damage of the fuel cell when the power output of the fuel cell varies from one level to another. The fuel cell system is governed by a set of complicated nonlinear dynamical equations. To ease the control design task, we model the system, at each operating point, as a feedback interconnection of a linear time-invariant nominal part with a norm-bounded perturbation. We use the technique of system identification to acquire the transfer function representation of the nominal part and the size of the perturbation. To do this, the chirp signal is adopted to excite the system and the observed response is analyzed using spectral analysis to obtain the model. Based on the model, a $H_{infty}$ PID controller is designed for the fuel cell system. The design is tested on an experimental platform. The experimental results verify that the proposed controller can regulate the hydrogen excess ratio rapidly under load variation, and effectively reject the influence of external disturbances.