Nutrient enrichment of coastal marine waters caused by losses of nitrate (NO(3)(-)) from agriculture is an increasing global problem. In the European Union, the Nitrates Directive (ND) of 1991 was meant to be a cornerstone in reducing eutrophication effects in coastal waters downstream from intensively farmed catchments. Although reductions in losses of nitrate have been attained, very few Member States have yet been able to reduce eutrophication effects caused by inputs of NO(3)(-) from agriculture. We report trends in concentrations of NO(3)(-) and chlorophyll-a (Chl-a) in Danish coastal and open marine waters during the period from 1996 to 2011 together with an assessment of eutrophication status based on multiple indicators (e.g. nutrient concentrations, Chl-a, submerged aquatic vegetation and benthic macroinvertebrates). Despite decreasing concentrations of both NO(3)(-)and Chl-a, Danish coastal waters are not yet to be classified as 'unaffected by eutrophication'. In order to improve future pan-European evaluations of the effectiveness of the ND, we argue for the added value of including indicators and assessment principles from other European Directives, i.e. the Water Framework Directive and the Marine Strategy Framework Directive.