Random amplified polymorphic DNA (RAPD) analysis was used to evaluate the genetic diversity of 5 experimental crosses and 9 commercial cultivars of Egyptian cottons (Gossypium barbadense L.). The crosses showed varying levels of susceptibility to Fusarium wilt disease, while all the cultivars were highly resistant. The tested genotypes (crosses and cultivars) were analyzed with 4 random decamer primers using the polymerase chain reaction (PCR). All the primers detected polymorphism in all the tested genotypes. Cluster analysis by the unweighted pair-group method of arithmetic means (UPGMA) placed the genotypes in several groups with overall similarity levels ranged from 67.15 to 96.74%, which may indicate that the tested genotypes had a narrow genetic base. Grouping the genotypes based on their RAPD-PCR banding patterns was not related to their reaction to the Fusarium-wilt disease. The results of this study could be used for cultivar identification or for seed purity tests.