COVID-19 is spreading out in the world now. Passenger ships such as cruise ships are very critical in this situation. Boats’ hazardous areas need to be identified in advance and managed carefully to prevent the virus. Therefore, this paper proposes for the first time that three technologies are required to support the sustainable management of ships in the post-COVID-19 era. They are ship indoor positioning, close contact identification, and risk area calculation. Ship environment-aware indoor positioning algorithms are proposed for the first time for the moving ship environment, followed by a clustering algorithm for close contact identification. Then, the risk area is calculated using the convex hull algorithm. Finally, a sustainable management approach for ships post COVID-19 is proposed.