The Eurasian Eagle-Owl (Bubo bubo) shows reversed sexual size dimorphism. We aimed to evaluate morphological size differences between the sexes of the smallest eagle-owl subspecies (B. b. kiautschensis), for which little morphometric information is available, and to develop a discriminant function for sex using a minimum number of morphometric parameters. We compared nine morphological measurements of 41 genetically or anatomically sexed eagle-owls admitted to a Korean wildlife rescue center and used discriminant function analysis of 29 birds (17 female, 12 male) with complete measurement data of nine biometrics. We developed four equations using three measurements (total length, head length, and weight) that had 86–96% accuracy for sexing Korean Eagle-Owls. The subspecies-specific morphometric data and discriminant functions we developed can help fill the current knowledge gap regarding the morphological characteristics of this little-known subspecies, benefiting researchers, wildlife managers, and veterinarians who work with or study this apex predator in the Korean forest ecosystem.