Vulnerable areas by non-point source pollution and prioritizing control areas were researched using hydrological and geomorphological data, non-point source loads, and water quality data. Using overlay analysis, vulnerable areas were graded with various scenarios. Vulnerable areas were selected near the metro city with impermeable landuse because non-point source loads and water quality data had influence on overlay analysis to rank vulnerable area. Analysis scenarios and weighted values can be changed under regional characteristics and given conditions.