This paper addresses the problem of bond graph methodology as a graphical approach for modeling fuel cell systems. The system consists of a Proton Exchange Membrane Fuel Cell (PEMFC) stack, an interleaved boost converter, battery pack connected via a buck converter. Simulation results illustrate the simplified system response obtained using implementation of the governing equations in MATLAB/Simulink and is compared with a bond graph implementation in the simulation program 20-sim. Copyright (C) 2014, Hydrogen Energy Publications, LLC. Published by Elsevier Ltd. All rights reserved.