Background and Aim: Schistosomiasis (SCH) japonica is a zoonotic disease that can infect several mammalian hosts. Bovines, particularly water buffaloes, are considered the most important reservoir hosts due to the high levels of schistosome eggs, they excrete into the environment. In the Philippines, the previous studies have revealed a high prevalence of SCH in bovines in selected provinces in Luzon, Visayas, and Mindanao. However, there is a lack of studies on SCH in the Davao Region, Mindanao, where the infection remains a public health concern. This study aimed to determine the prevalence of SCH in water buffaloes in four barangays (villages) each in Braulio Dujali, Davao del Norte and Maragusan, Davao de Oro, Southeastern Mindanao, the Philippines. Materials and Methods: Fecal samples from 91 water buffaloes were collected intrarectally, processed using the formalin-ethyl acetate sedimentation technique, and examined microscopically to determine the prevalence of SCH. Results: A total of three water buffaloes (8.6%) in Maragusan were determined to be positive for Schistosoma japonicum, while none in Braulio Dujali. The prevalence of other parasites (Fasciola spp. [53.8%], Paramphistome spp. [20.9%], Amphistome spp. [16.5%], Strongyle spp. [11.0%], Balantidium spp. [9.9%], Eurytrema spp. [2.2%], and Gongylonema pulchrum [1.1%]) was also observed. Conclusion: The results of the study provide baseline data on the presence of S. japonicum in water buffaloes in the Davao Region, Mindanao. Strategies for controlling and eliminating SCH in animal reservoir hosts, especially in water buffaloes, are necessary for the long-term control and elimination of SCH in humans.