The park is managed by the Conservation Service of the Waza National Park, part of the Cameroon Ministry of Environment and the Protection of Nature. Waza, which was considered the best-managed protected area in Cameroon, now has established collaboration with the IUCN Waza-Logone project to improve the water availability conditions, specifically in Waza National Park () and the much smaller Kalamaloue National Park (), as well as other areas adjoining them through the Waza-Logone Project. The area covered under this project, which forms the flood plains of the basin covered by the two river systems of the Logone River to the Logomatya River, contributed significantly to the floodplain Biosphere Reserve, and sustained a very large number of mammals and birds which depended on the annual inundation of the flood plain. With the construction of the Maga Dam, built for irrigated agriculture of rice, the water resource contribution to the flood plains underwent a drastic reduction. To improve the sustainability of the flood plains of the two parks, IUCN embarked on a project titled "IUCN’s Waza-Logone Project" with specific objectives of improving fish production, enhance the quality of grazing lands on which the local population were dependent; and to also increase the surface water for subsistence and proliferation of vegetation and wildlife, including avifauna not only of resident birds but also birds that migrate from Europe during the winter season. Under this project, launched by IUCN in 1994 in collaboration with the Ministry of Environment and the Protection of Nature of Cameroon, the hydrological condition of the wetland has undergone improvements following creation of two seasonal watercourses that interconnect the Logone River with the Logomatya River and facilitates water flows spreading to the floodplains. This plan has worked out well and wetlands conditions of the flood plains is reported to have improved substantially.