The wakes of wall-mounted small (square) and large (long) depth-ratio rectangular prisms are numerically studied at Reynolds numbers of 50−250. The large depth-ratio significantly alters the dominance of lateral secondary flow (upwash and downwash) in the wake due to the reattachment of leading-edge separated flow on the surfaces of the prism. This changes the wake topology by varying the entrained flow in the wake region and changing the distribution of vorticity. Thus, the magnitude of vorticity significantly decreases by increasing the prism depth-ratio. Furthermore, the length of the recirculation region and the orientation of near wake flow structures are altered for the larger depth-ratio prism compared to the square prism. Drag and lift coefficients are also affected due to the change of pressure distributions on the rear face of the prism and surface friction force. This behavior is consistently observed for the entire range of Reynolds numbers considered here. The wake size is scaled with Re1/2, whereas drag coefficient scaled with Re−0.3.