Abstract: This paper carried out a systematic sampling and analysis on water quality of Jinan spring system .The results show that karst water in Jinan has generally been polluted by organic pollutants, which detection rate is up to 93%. The water samples with more than 5 items of organic detected are mainly found around the large and medium-sized enterprises. Among all the organisms detected, the organochlorine pesticide category and halohydrocarbon category get the highest detection rate as 60% and 57.8% respectively. Although organic pollution is widespread, the organic pollutants exist in karst water with a low content, and superscalar phenomenon only exists in local area. The organic pollutants distribution in spring area is controlled by industrial enterprises location and groundwater flow. The nearly rectangular shape of the karst water of organic pollution formed in southern margin of Jinan intrusive rock body, covering an area of 156km2. The southern contaminated area is the industrial zone, with shallowly buried limestone and poor anti-fouling properties. Besides, the groundwater flow direction and intrusive rock body in the southern edge meet nearly vertically with each other, so the organic pollutants can be transported toward north into the limestone aquifer with the groundwater, which leads to the karst groundwater lying under the igneous rock to be polluted.