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The waters of Bosnia and Herzegovina are split between the Danube River Basin District and the Adriatic Sea Basin. Some 40.2% of the Sava river sub-basin, the second largest sub-basin of the Danube River Basin, lies in Bosnia and Herzegovina. The rest of the watershed is shared by Croatia, Serbia and Slovenia.

The Sava is the Danube's largest tributary of the Danube in terms of discharge and the second largest in terms of catchment area. The Sava is shared by Slovenia, Croatia, Bosnia and Herzegovina, Serbia and Montenegro. The joint management arrangements acted as a pilot for the implementation of the European Union's Water Framework Directive for the Danube and Europe.

The International Commission for the Protection of the Danube River (ICPDR) works to ensure the sustainable and equitable use of waters in the Danube River Basin. The work of the ICPDR is based on the Danube River Protection Convention (DRPC), the major legal instrument for cooperation and transboundary water management in the Danube River Basin.