Multivariate techniques, discriminant analysis, and WQI were applied to analyze a water quality data set including 27 parameters at 5 sites of the Lake Wular in Kashmir Himalaya from 2011 to 2013 to investigate spatiotemporal variations and identify potential pollution sources. Spatial and temporal variations in water quality parameters were evaluated through stepwise discriminant analysis (DA). The first spatial discriminant function (DF) accounted for 76.5% of the total spatial variance, and the second DF accounted for 19.1%. The mean values of water temperature, EC, total-N, K, and silicate showed a strong contribution to discriminate the five sampling sites. The mean concentration of NO 2 -N, total-N, and sulphate showed a strong contribution to discriminate the four sampling seasons and accounted for most of the expected seasonal variations. The order of major cations and anions was Ca 2+ > Mg 2+ > Na + > K + and Cl − > SO4 2− > SiO 2 2− respectively. The results of water quality index, employing thirteen core parameters vital for drinking water purposes, showed values of 49.2, 46.5, 47.3, 40.6, and 37.1 for sites I, II, III, IV, and V, respectively. These index values reflect that the water of lake is in good condition for different purposes but increased values alarm us about future repercussions.