VegDischarge v1 is a comprehensive river discharge across Africa (2000–2021), produced by coupling the agro-hydrologic VegET model and the mizuRoute routing framework. Using remote sensing data and hydrological modeling, the 1-km runoff field simulated by VegET, and routed with mizuRoute, covers over 64,000 river segments in Africa. The VegET model simulates runoff based on vegetation and soil moisture dynamics, while mizuRoute processes this runoff through a detailed river network. Performance metrics show strong model reliability, with R² ranging from 0.5 to 0.9, NSE between 0.6 and 0.9, and KGE from 0.5 to 0.8. The total annual average discharge for Africa is quantified at 3238.1 km³^.year-1, with contributions to various oceanic basins: 989.9 km³^.year-1 to the North Atlantic, primarily from West African rivers like the Senegal, Gambia, Volta, and Niger; 1313.7 km³^.year-1 to the South Atlantic, largely from the Congo River; 212.5 km³^.year-1 to the Mediterranean Sea, predominantly from the Nile River; and 722.0 km³^.year-1 to the Indian Ocean, with substantial inputs from rivers such as the Zambezi. This VegDischarge v1 is valuable for policymakers, stakeholders, and researchers to better understand water availability, its temporal and spatial variations, that impact water-related infrastructure planning, sustainable resource allocation, and the development of climate resilience mitigation strategies.