Waves can have a significant impact on nearshore currents. A three-dimensional baro-clinic current model including the influence of waves is presented for shallow water areas from Navier-Stokes equations. It has been found that the effects of waves on currents can be expressed in terms of the momentum flux by waves. The model uses non-orthogonal curvilinear coordinates in the horizontal directions and a Sigma coordinate in the vertical direction so that it can be more reasonably applied in estuarine and coastal regions. A three-dimensional baro-clinic current model including the influence of waves is presented for shallow water areas from Navier-Stokes equations. It has been found that the effects of waves on currents can be expressed in terms of the momentum flux by waves. The model uses non-orthogonal curvilinear coordinates in the horizontal directions and a Sigma coordinate in the vertical direction so that it can be more reasonably applied in estuarine and coastal regions.