This short report provides the first observations of deep-sea corals belonging to the class Octocorallia and order Antipatharia surveyed during the KM24-03 Leg 2 cruise in the waters around Minamidaito and Kitadaito Islands in Okinawa, Japan between approximately 200 and 1,000 m. It also lists and illustrates the specimens that were collected. Based on field observations, deep-sea corals occupied the niches inside and around caves and crevices, as well as non-cave environments such as flat seabeds and slopes. Our morphological and phylogenetic analyses of the collected specimens revealed the presence of Callogorgia cf. korema, Pleurocorallium inutile, and Acanthopathes undulata. We provide the first documentation of deep-sea corals found in this area, as well as extend the known geographic distribution of these species. In particular, the black coral A. undulata, which until now has only been reported from the western and central Pacific Ocean, is reported for the first time in the northwestern Pacific. Our preliminary findings warrant further investigation and more stringent protection of the deep-sea species and habitats found in the waters around these karstic islands from anthropogenic impacts, perhaps with inclusion in regional Marine Protected Areas.