In Jeju island, runoff has frequently happened when the rainfall depth is over a threshold value. To simulated this characteristic rainfall-runoff model structure has to be modified. In this study, the TRSM (Threshold Runoff Simulation Method) was developed to overcome the limitations of SWAT in applying to the hydrologic characteristics of Jeju island. When the precipitation and soil water are less than threshold value, we revised the SWAT routine not to make surface/lateral or groundwater discharge. For Hancheon watershed, the threshold value was set as 80% of soil water through the analysis of rainfall-runoff relationship. Through the simulation of test watershed, it was proven that TRSM performed much better in simulating pulse type stream flow for the Hancheon watershed.