The hydrologic models, capable of simulating groundwater recharge for long-term period and effects on it of crops management in the agricultural areas, have been used to compute groundwater recharge in the agricultural fields. Among these models, the Soil and Water Assessment Tool (SWAT) has been widely used because it could interpret hydrologic conditions for the long time considering effects of weather condition, land uses, and soil. However the SWAT model couldn`t represent the spatial information of Hydrologic Response Unit (HRU), the SWAT HRU mapping module was developed in 2010. With this capability, it is possible to assume and analyze spatio-temporal groundwater recharge. In this study, groundwater recharge of rate for various crops in the Mandae stream watershed was estimated using SWAT HRU Mapping module, which can simulate spato-temporal recharge rate. As a result of this study, Coefficient of determination (R2) and Nash-Sutcliffe model efficiency (NSE) for flow calibration were 0.80 and 0.72, respectively, and monthly groundwater recharge of Mandae watershed in Haean-myeon was 381.24 mm/year. It was 28% of total precipitation in 2009. Groundwater recharge rate was 73.54 mm/month and 73.58 mm/month for July and August 2009, which is approximately 18 times of groundwater recharge rate for December 2009. The groundwater recharges for each month through the year were varying. The groundwater recharge was smaller in the spring and winter seasons, relatively. So, it is necessary to enforce proper management of groundwater recharge during droughty season. Also, the SWAT HRU Mapping module could show the result of groundwater recharge as a GIS map and analyze spatio-temporal groundwater recharge. So, this method, proposed in this study, would be quite useful to make groundwater management plans at agriculture-dominant watershed.