A hybrid silencer in a fuel cell system includes an expansion chamber connected to a predetermined apparatus of the fuel cell system, where the expansion chamber reduces acoustic noise of a fluid discharged from the predetermined apparatus, a water-absorber disposed inside the expansion chamber, where the water-absorber absorbs a liquid component of a fluid which flows into the expansion chamber; and a perforated silencer which discharges the fluid from which the liquid component is removed by the water-absorber while reducing acoustic noise of the fluid discharged therefrom.