Storm water discharge systems that discharge directly into the sea contribute significantly to nutrient, hazardous substances and litter loads. Storm water systems which are well managed, work effectively, have appropriate water treatment systems help to reduce the marine pollution. The objective is to map all relevant storm water discharge points on Estonian coast, make the assessment of pollution loads from storm water discharges and water quality monitoring in marine areas, analyse and propose appropriate pollution reduction measures, revise the national regulatory system to support the construction of effective storm water system in coastal areas.