This document discusses using data mining techniques like artificial neural networks (ANN) to model the impacts of nonpoint source pollution in complex coastal estuaries. ANN models can extract relationships from large monitoring datasets to better understand estuary dynamics and the effects of factors like rainfall, tides, and freshwater flows. Case studies of the Cooper River and Beaufort River estuaries show ANN models accurately simulate dissolved oxygen levels and salinity intrusion in response to these drivers. Data mining allows interactive "what if" scenarios to inform total maximum daily load and permitting decisions.