The species richness of the crustacean zooplankton (Cladocera and Copepoda) and Rotifera in the Middle Niger-Sokoto Basin is characterised from 35 1 samples collected from 109 localities. 26(4) Cladocera, 18(8) Copepoda and 38(8) Rotifera are recorded. Figures in brackets indicate first records of species for Nigeria. Zooplancton associations of the Middle Niger are compared with one of its major tributaries, River Sokoto, and seven of its minor tributaries using similarity indices of S~rensen and Pearsons Product Moment Cluster Coefficients. The Rivers Sokoto and Shagari consistently had the highest similarity of zooplankton associations, for all combinations of rivers studied with r = 0.54 (Cladocera), r = 0.91 (Copepoda) and r = 0.54 (Rotifera). Zooplankton associations of the Middle Niger are weakly correlated with all tributaries studied (r < 0.1). Species composition and hydrology of the River Sokoto Basin are also compared with previous studies in Nigeria. A Principal Component Analysis of species abundance accounted for 54 % of the total variance. It again confirmed the similarity of the branches Sokoto and Shagari. Two groups of species assemblages were identified. The occurrence of Asplanchna sp., Testudinelta patina and Microcyclops varicans in one group appears related to microhabitat selection. The other group made up of Brachionus calyciflorus calyciflorus, Macrothrix spinosa, Lecane h a , Thermocyclops decipiens and Metacyclops minutus is suspected to be linked to physico-chemistry. Further studjes on the hydrology and physico-chemistry are required for definitive identification of both factors.