Desalination has the advantage of being easy to supply water resources. However most desalination devices are developed mainly for large plants and it is not common to use desalination system for a small fishing ship. More than 50% of the input fuel energy of the small shipbuilding’s engine is wasted without reused in a ship, and it is necessary to improving the fuel efficiency of the small fishing ship. In this study, a desalination device using waste heat from engine of the ships was developed. As results, it was found that if the condensing chamber uses a fan to circulate the water vapor, the freshwater production was up to 40.0% higher, and the freshwater production efficiency was up to 30.1% increased when the fan was operated.