Within NCICD, many partners work together. The program is currently managed by Program Management Unit coordinated by the Indonesian Coordinating Ministry for Economic Affairs, the National Development Planning Agency (Bappenas), the Ministry of Public Works (PU), and DKI Jakarta Provincial Government.

Dutch partners to the project include the Partners for Water Programme, of the Ministry of Infrastructure and the Environment, the Ministry of Economic Affairs and the Ministry of Foreign Affairs. The program is sponsored by the Netherlands Enterprise Agency (RVO) and supported by the Netherlands Water Partnership.

Dutch consultants involved are Royal HaskoningDHV, Witteveen & Bos, Grontmij, Rebel Group, KuiperCompagnons and Deltares.