Good water quality of the Rio San Juan is critical for economic development of northeastern Mexico. However, water quality of the river has rapidly degraded during the last few decades. Societal concerns include indications of contamination problems and increased water diversions for agriculture, residential, and industrial water supplies. Eight sampling sites were selected along the river where water samples were collected monthly for 10 mo (October 1995-July 1996). The concentration of heavy metals and chemical constituents and measurements of bacteriological and physical parameters were determined on water samples. In addition, river discharge was recorded. Constituent concentrations in 18.7% of all samples exceeded at least one water quality standard. In particular, concentrations of fecal and total coliform bacteria, sulfate, detergent, dissolved solids, Al, Ba, Cr, Fe, and Cd, exceeded several water quality standards. Pollution showed spatial and temporal variations and trends. These variations were statistically explained by spatial and temporal changes of constituent inputs and discharge. Samples collected from the site upstream of El Cuchillo reservoir had large constituent concentrations when discharge was small; this reservoir supplies domestic and industrial water to the city of Monterrey.