The operation related degradation processes of high temperature polymer electrolyte membrane fuel cell operated with hydrogen-rich reformate gas are studied. CO impurities from the reformate gas are strongly adsorbed by the catalyst surface, leading to poisoning and thus, reduction of the overall performance of the cell. Most of the studies are performed in a laboratory set-up by applying accelerated stress tests. In the present work, a high temperature polymer electrolyte membrane fuel cell is operated in a realistic configuration for 12 000 h (500 days). The fuel cell contains as electrocatalyst Pt in the cathode and a Pt-Ru alloy in the anode. The study of the degradation occurring in the functional layers, i.e. in different regions of cathode, anode and membrane layer, is carried out by scanning electron microscopy, (scanning) transmission electron microscopy and energy dispersive X-ray spectroscopy. We observed a thinning of the functional layers and a redistribution of catalyst material. The thinning of the cathode side is larger compared to the anode side due to harsher operation conditions likely causing a degradation of the support material via C corrosion and/or due to a degradation of the catalyst via oxidation of Pt and Ru. A thinning of the membrane caused by oxidation agents is also detected. Moreover, during operation, catalyst material is dissolved at the cathode side and redistributed. Our results will help to design and develop fuel cells with higher performance.