This study examined morphological variation in fruits and seeds of Balanites aegyptiaca trees within and among four parkland agroforests in eastern Niger. Fruits were collected from 25 trees in each population and measured for various traits. There was significant phenotypic variation among trees and populations for traits like fruit weight. Northern and eastern populations tended to have heavier fruits and seeds. Variation within individual trees, as measured by coefficients of variation, decreased from south to north for some traits. Correlations between traits also differed among populations. The study found geographic patterns in traits related to rainfall gradients and provides information to support domestication of this important tree species.