We demonstrate the modulation of spin Seebeck effect (SSE) by hydrogenation in Pd/YIG bilayers. In the presence of 3% hydrogen gas, SSE voltage decreases by more than 50% from the magnitude observed in pure Ar gas. The modulation of the SSE voltage is reversible, but the recovery of the SSE voltage to the prehydrogenation value takes a few days because of a long time constant of hydrogen desorption. We also demonstrate that the spin Hall magnetoresistance of the identical sample reduces significantly with hydrogen exposure, supporting that the observed modulation of spin current signals originates from hydrogenation of Pd/YIG.