To study the disparity of river hydrochemical characteristics and water quality in different regions of the city, this paper took the Tuo River in the center of Suzhou, Northern Anhui, China and the Bian River on the edge of the urban area as the research objects, used Piper trigram, Gibbs diagram, and hydrogen and oxygen isotope content characteristics to analyze the geochemical characteristics of surface water in the study area, and then the improved fuzzy comprehensive evaluation method was used to evaluate the water quality. The results showed that the hydrochemical types of the two rivers were SO4-Cl-Na type, and the contents of Na+, K+, SO42−, Cl−, Ca2+, total phosphorus (TP) in the Bian River at the edge of the city were much higher than those in the Tuo River at the center of the city (ANOVA, p < 0.001). Gibbs diagram showed that the ion composition of the two rivers was mainly affected by rock weathering. The results of correlation analysis and water quality evaluation showed that Bian River was greatly affected by agricultural non-point source pollution, and its water quality was poor, class IV and class V water account for 95%, while, for Tuo River, due to the strong artificial protection, class II and class III accounted for 40.74% and 59.26%, respectively, and the overall water quality was better than that of Bian River. The evaluation results of irrigation water quality showed that the samples from Tuo River were high in salt and low in alkali, which could be used for irrigation when the soil leaching conditions were good, while Bian River water samples were high in salt and medium in alkali, which was suitable for irrigation of plants with strong salt tolerance.