This study analyzed terrestrial water storage (TWS) changes across the Inner Niger Delta (IND) in Mali (West Africa) from April 2002 to September 2022 using Gravity Recovery and Climate Experiment (GRACE), GRACE-Follow-On (GRACE-FO), and Global Land Data Assimilation System (GLDAS) products. TWS changes exhibited strong seasonal patterns (−170 mm to 330 mm) with a high correlation between GRACE/GRACE-FO and GLDAS (r = 0.92, RMSE = 35 mm). The TWS trend was positive (7.3 to 9.5 mm/year). Maximum TWS changes occurred in September, while minimum values were observed between April and May. Wavelet analysis identified dominant seasonal cycles (8–16 months). Finally, we examined the climatic effects on TWS changes along the Niger River, from its source in the humid zones of Guinea to the semi-arid Sahelian zones of the IND in Mali. Precipitation (P) and potential evapotranspiration (PE) influence TWS changes only in the humid regions (r = 0.18–0.26, p-value < 10−2). Surface water bodies (SWB) exhibited a significant correlation with TWS in all regions, with r exceeding 0.50 in most cases. Groundwater changes, estimated from GRACE/GRACE-FO and GLDAS, showed strong agreement (r > 0.60, RMSE < 120 mm), with recharge rates increasing in semi-arid and Sahelian regions (r > 0.70, p-value < 10−3). This study highlights that precipitation, surface water bodies, and groundwater recharge appear as primary drivers of TWS in different regions: precipitation in the humid forest of Guinea, surface water bodies in the Southern and Northern Guinea Savanna along the Guinea–Mali border, and groundwater recharge in the semi-arid and IND Sahelian regions of central Mali.
