Fuel cell systems are regarded as a promising candidate in replacing the internal combustion engine as a renewable and emission free alternative in automotive applications. However, the operation of a fuel cell stack fulfilling transient power-demands poses significant challenges. Efficiency is to be maximized while adhering to critical constraints, avoiding adverse operational conditions (fuel starvation, membrane flooding or drying, etc.) and mitigating degradation as to increase the life-time of the stack. Owing to this complexity, advanced model-based diagnostic and control methods are increasingly investigated. In this work, a real time stack model is presented and its experimental parameterization is discussed. Furthermore, the stack model is integrated in a system simulation, where the compressor dynamics, the feedback controls for the hydrogen injection and back-pressure valve actuation, and the purging strategy are considered. The resulting system simulation, driven by the set-point values of the operating strategy is evaluated and validated on experimental data obtained from a fuel cell vehicle during on-road operation. It will be shown how the internal states of the fuel cell simulation evolve during the transient operation of the fuel cell vehicle. The measurement data, for which this analysis is conducted, stem from a fuel cell research and demonstrator vehicle, developed by a consortium of several academic and industrial partners under the lead of AVL List GmbH.