In this article we present the first investigation of the stable isotope composition of groundwater in Romania, East-Central Europe, with a focus on the karst areas. Our aim is twofold: (1) to provide a countrywide map with the distribution of stable oxygen and hydrogen isotope ratios in groundwater, and (2) to assess the recharge patterns of karst water. We collected more than 600 water samples from springs and wells across Romania for stable isotope analyses and monitored in detail the stable isotope composition of the waters as they pass through five cave systems. Our data show a spatial distribution of the stable isotope composition of the groundwater with low values in the mountainous area and high values in the surrounding lowlands and the central Transylvanian Depression. However, waters in karst areas induce departures from this distribution, resulting from the fast (hours to days) transfer of waters from high (ponor) to low (spring) altitudes. Water emerging from the karst springs has generally lower δ values than before sinking through the ponors, thus indicating a substantial contribution of winter recharge through diffuse infiltration and seepage. This contribution results in overall dilution of the water entering through ponors, likely resulting in changes in the chemical composition of the water and diluting potential pollutants. Our data call for careful separation between karst and non-karst spring/well waters, as indiscriminate common treatment might lead to erroneous interpretations.