In this work, we reported FTOCuWO4MnWO4 type II heterojunction films synthesized by microwave-hydrothermal method and prepared using the drop-casting methodology. The formation of heterojunction was confirmed through X-ray diffraction (XRD), Micro-Raman, and X-ray photoelectron spectroscopy (XPS) analysis. MnWO4 nanorods were deposited on top of flake-like CuWO4, thus forming a heterojunction with efficient charge transfer. The photocurrent response of films was investigated under simulated AM1.5G illumination. The heterojunction yields 2 times improved photocurrent density in comparison with that of pristine FTOCuWO4, reaching 39A/cm2 at 1.23 V versus normal hydrogen electrode. Higher visible light absorption and lower charge transfer resistance were observed for the FTOCuWO4MnWO4 heterojunction. Photocurrent kinetic curve studies confirmed the reduced electron-hole recombination rate for the heterojunction. This material provides a heterojunction photocatalyst with a potential improved performance for photocatalytic applications.