A new one-shot process was employed to fabricate proton exchange membranes (PEMs) over conventional solvent-casting process. Here, PEMs containing nano-dispersed silica nanoparticles were fabricated using one-shot process similar to the bulk-molding compounds (BMC). Different components such as reactive dispersant, urethane acrylate nonionmer (UAN), styrene, styrene sulfuric acid and silica nano particles were dissolved in a single solvent dimethyl sulfoxide (DMSO) followed by copolymerization within a mold in the presence of radical initiator. We have successfully studied the water-swelling and proton conductivity of obtained nanocomposite membranes which are strongly depended on the surface property of dispersed silica nano particles. In case of dispersion of hydrophilic silica nanoparticles, the nanocomposite membranes exhibited an increase in water-swelling and a decrease in methanol permeability with almost unchanged proton conductivity compared to neat polymeric membrane. The reverse observations were achieved for hydrophobic silica nanoparticles. Hence, hydrophilic and hydrophobic silica nanoparticles were effectively dispersed in hydrophilic and hydrophobic medium respectively. Hydrophobic silica nanoparticles dispersed in hydrophobic domains of PEMs largely suppressed swelling of hydrophilic domains by absorbing water without interrupting proton conduction occurred in hydrophilic membrane. Consequently, proton conductivity and water-swelling could be freely controlled by simply dispersing silica nanopartilces within the membrane.