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As koi and common carp gain importance in the Korean fish industry, the need for better diagnosis, prevention, and treatment of associated diseases has increased. In June 2019, the first known case of mass mortality involving cyprinid herpesvirus-3 (CyHV-3) and the second involving carp edema virus (CEV) occurred in a koi farm in Jeolla-do, Korea. Notably, the CEV exhibited a closer phylogenetic relationship with certain CEV strains originating from Poland, Germany, and India than with strains originating from China or Japan. Epidemiological studies and detailed surveillance and control for CEV and CyHV-3 are needed along with quarantine inspections.