Assembly pressure and membrane swelling induced by elevated temperature and humidity cause inhomogeneous compression and performance variation in proton exchange membrane (PEM) fuel cells. This research conducts a comprehensive analysis on the effects of assembly pressure and operating temperature and humidity on PEM fuel cell stack deformation, contact resistance, overall performance and current distribution by advancing a model previously developed by the authors. First, a finite element model (FEM) model is developed to simulate the stack deformation when assembly pressure, temperature and humidity fields are applied. Then a multi-physics simulation, including gas flow and diffusion, proton transport, and electron transport in a three-dimensional cell, is conduced. The modeling results reveal that elevated temperature and humidity enlarge gas diffusion layer (GDL) and membrane inhomogeneous deformation, increase contact pressure and reduce contact resistance due to the swelling and material property change of the GDL and membrane. When an assembly pressure is applied, the fuel cell overall performance is improved by increasing temperature and humidity. However, significant spatial variation of current distribution is observed at elevated temperature and humidity. (C) 2009 Elsevier B.V. All rights reserved.