Background The human external ear is unique in every individual in terms of shape, size and dimension making it suitable in forensic anthropology for sex estimation and personal identification purposes. The study aimed to evaluate sexual dimorphism and ethnic specificity of the external ear in major Nigerian ethnic populations. Results There was variation in the morphological features of the external ear of the sampled subjects. The external ear features vary in the right and left ears in both sexes of the ethnic groups. All variables were statistically significant (p < 0.05) except ear width. Univariate discriminant function gave sex prediction accuracies between 56.4 and 57.3% for left and right ears, respectively. Population-specific sex prediction accuracy using stepwise discriminant analysis of left ear variables ranged 58–69.7% and 57.5–74.2% for right ear. Conclusion The ear parameters showed potential for sex estimation, but cannot be solely relied upon for personal identification.