This present study investigated the potential of passive flow control to reduce induced drag by using a micro-vortex generator (MVG) at a backward-facing step (BFS) location. A wing-in-ground (WIG) craft is a fast watercraft that resembles a dynamically stabilised ship that can move or glide across the surface of water or land. Therefore, the wing of the WIG is designed to glide when in contact with water, which helps to decrease drag and enhance the lift of the overall vehicle. However, the existing design of the hull-fuselage of WIG tends to induce more drag during the flight, especially at a flow downstream of a BFS, which will cause inefficient fuel consumption over the distance travelled. MVG with the ramp type was chosen and tested at various angles (°) and heights (h). The angles (°) tested were 12°, 16°, and 24°, while the heights (h) tested were 0.4 δ, 0.6 δ, and 0.8 δ, where δ refers to the boundary layer height. The model was designed and fabricated using a 3D printer. The 3D model was tested in a subsonic wind tunnel at Re = 6.1 × 104 m−1 to 6.1 × 105 m−1 between 1 and 10 m/s. This study demonstrated that the most effective angle and height of MVG for reducing the drag coefficient were 16° and 0.6 δ, respectively. In comparison to an uncontrolled case, the drag coefficient decreased significantly by 38% compared to the baseline.