In designing and controlling fuel cell systems, it is advantageous to have models which predict fuel cell behaviour in steady‐state as well as in dynamic operation. This work examines the use of electro‐chemical impedance spectroscopy (EIS) for characterising and developing an impedance model for a high temperature PEM (HT‐PEM) fuel cell stack. A Labview virtual instrument has been developed to perform the signal generation and data acquisition which is needed to perform EIS. The typical output of an EIS measurement on a fuel cell is a Nyquist plot, which shows the imaginary and real parts of the impedance of the measured system. The full stack impedance depends on the impedance of each of the single cells of the stack. Equivalent circuit models for each single cell can be used to predict the stack impedance at different temperature profiles of the stack. The information available in such models can be used to predict the fuel cell stack performance, e.g. in systems where different electronic components introduce current harmonics.