The purpose of this study was to assess nonpoint sources (NPS) pollution affected by liquid manure and regulating gate in a small agricultural watershed. The study area, which is a wide plain farmland, was operating by the Buyong regulating gate in order to maintain irrigation water level during irrigation period. Consequentially, runoff only occurs through the gate at each event in rainy season for avoiding farmland inundation. In addition, the usage ratio of liquid manure in the study area has been increased greatly since 2014. Discharge loads at the Hwaingsan bridge subwatershed were 1.2 times for T-N, 4-10 times for T-P, and 3-8 times for TOC compared with the Soyang watershed (control) during study period. The reason was that NPS pollutants from upper Gpeun and Sangri bridge subwatersheds, which are widely spraying with livestock liquid manure, were stack at this subwaterehd because of regulating gate in non-rainy seasons. A number of agricultural watersheds in Saemangeum watershed are affected by regulating gate and vigorous livestock activities so that substantial management schemes under controling regulating gate are needed for minimizing livestock related NPS.