Disease monitoring was conducted to investigate the recent disease occurrence in Japanese eels (Anguilla japonica). Between May 2021 and March 2022, an investigation was conducted on eels from seven farms experiencing mortality. JEECV (Japanese eel endothelial cells-infecting virus) was detected in all examined farms, each exhibiting co-infections with 1 or 2 bacteria, including Edwardsiella anguillarum, E. piscisida, Aeromonas sp., Citrobacter freundii, Lactococcus garviae, or Vibrio sp. From March 2022 to October 2023, monthly periodic inspections were carried out at a farm in Yeonggwang, Jeollanam-do, for a total of 22 times. JEECV was detected in 10 out of 22 times, even when mortality was not recorded. Bacteria such as E. anguillarum, C. freundii, Aeromonas sp., and Vibrio sp. were isolated, but consistent clinical signs of liver abscess and hemor- rhagic lesions were only recognized in fish infected with E. anguillarum. Other bacteria were often isolated from apparently healthy fish. In conclusion, mortality in eel farms frequently occurs due to co-infections of JEECV with bacteria rather than JEECV alone. Therefore, to reduce eel mortality, it is crucial to decrease co-infections, with a particular emphasis of JEECV and E. anguillarum.