Maneuver simulation of a standard ship model gives indication of numerical accuracy. In the numerical calculation of ship maneuvering, uncertainty analysis is a necessary step to ensure the accuracy of the calculation. In this study, uncertainty pair analysis is carried out in the simulation of the turning circle motion of the standard ship model ONRT in waves. According to the uncertainty analysis procedure recommended by the International Towing Tank Conference (ITTC), the change of ship resistance caused by the number of grids is studied to determine the influence of grid density on the numerical prediction. The simulation of turning motion in waves is carried out based on the uncertainty analysis. It is found that the minimum number of overset grids for this simulation is 1.4 million. The numerical results are fairly accurate compared to experimental results, and this technique provides a method with low calculated cost for this simulation.