Baswflow is defined as short term discharge through groundwater caused by rainfall events. Impacts of baseflow is significant on water quality especially where pervious agricultural watershed as groundwater is more vulnerable to the contamination. In this study, the Cheongmicheon watershed was subjected to study to assess the impacts of baseflow on surface water quality, where more than 90% of pollutant load is originated from the livestock raising area, and very high probability of surface water contamination due to the baseflow. To estimate nutrient loading cased by baseflow, NI (Numerical Integration) model and LOADEST (LOADing ESTimation) model were used.