Our understanding of the impact of atmospheric acid deposition on marine carbonate system remains limited, largely due to a lack of data regarding acidity present in atmospheric particles and precipitation. Previous research has relied on the electroneutrality-based ion balance method for indirect estimation of atmospheric acidity. In this study, atmospheric samples collected at a coastal site of South Korea were mixed with seawater to measure the change in seawater total alkalinity (ΔTAAPL) associated with atmospheric proton loading. For the precipitation samples, the measured ΔTAAPL and electroneutrality-based estimates showed a significant correlation. However, we did not observe similar results for the atmospheric particle samples. Furthermore, the decrease in oceanic TA due to ΔTAAPL was substantially smaller than that in dissolved inorganic carbon from concurrent nitrogen fertilization. Consequently, the adverse impact of acid deposition on ocean acidification or air-sea exchange of CO2 appears to be insignificant on a short-term scale.