A low energy (∼30 V) plasma treatment of Nafion, a commercial proton exchange membrane used for low temperature fuel cells, is performed in a helicon radiofrequency (13.56 MHz) plasma system. For argon densities in the 109–1010 cm−3 range, the water contact angle (hydrophobicity) of the membrane surface linearly decreases with an increase in the plasma energy dose, which is maintained below 5.1 J cm−2, and which results from the combination of an ion energy dose (up to 3.8 J cm−2) and a photon (mostly UV) energy dose (up to 1.3 J cm−2). The decrease in water contact angle is essentially a result of the energy brought to the surface by ion bombardment. The measured effect of the energy brought to the surface by UV light is found to be negligible.