A three-dimensional computational fluid dynamic (CFD) model is developed for simulating a cylindrical Oscillating Water Column (OWC) device for harvesting wave energy. The single-phase CFD model solves the Reynolds-Averaged Navier-Stokes (RANS) equations using the finite element method for simulating the wave motion and uses an aerodynamic model to simulate the flow through the air turbine. The model is implemented to simulate wave energy harvesting of a cylindrical OWC device. Through harmonic decomposition, it is found that the first harmonic wave surface elevation oscillates like a piston in the OWC chamber. However, both the amplitude and phase of the second harmonic wave surface elevation vary significantly along the wave direction in the OWC chamber, demonstrating a sloshing mode of the second harmonic. This study further proved the reduction of the capture width ratio caused by the transverse sloshing mode when the wavelength is the same as the wave flume width. The effect of the width of the wave flume on the peak CWR is found to be negligibly small when the wave flume width is three times the OWC diameter.