A battery of water column and sediment toxicity bioassays measuring lethal and sublethal endpoints were employed with fish, invertebrates, vascular plants, and bacteria. Monthly water column bioassays were conducted with water from three stations in the South River, Maryland, USA, and from a reference station in the Wicomico River (Maryland, USA). Sediment bioassays were conducted with five discrete samples taken from each station. Water column assays indicated low‐level effects at the upstream stations in the South River. Animal species demonstrated higher responses than did plants. Chemical analyses revealed only trace levels of heavy metals. Sediment in the upper stations of the South River demonstrated significant toxicity to animal but not plant test species. Sediment chemistry indicated elevated levels of heavy metals and polycyclic aromatic hydrocarbons. The sediments are enriched with chromium, copper, iron, manganese, cadmium, and lead—above normalized background geochemical ratios. The toxicological risk ranking model identified a strong gradient from upstream to downstream. Toxicological risk scores for the downstream station in the South River were comparable to those for the reference station. The major source of contaminants in the South River is probably derived from a multitude of non–point sources associated with urbanization within the watershed. The upper stations are in a zone of deposition of riverine material, whereas the downstream station is dominated by open Chesapeake Bay dynamics.