In the quest to create effective sensors that operate at room temperature, consume less power and maintain their stability over time for detecting toxic gases in the environment, molybdenum disulfide (MoS2) and MoS2-based hybrids have emerged as potent materials. In this context, the current work describes the fabrication of Au-MoS2 hybrid gas sensor fabricated on gold interdigitated electrodes (GIEs) for sensing harmful CO and NH3 gases at room temperature. The GIEs-based Au-MoS2 hybrid sensors are fabricated by decorating MoS2 nanoflowers (MNF) with varying size of Au nanoparticles using an inert gas evaporation technique. It is observed that by varying the size of Au nanoparticles, the crystallinity gets modified, as confirmed by X-ray diffraction (XRD) and Micro-Raman spectroscopy (μRS). The gas sensing measurements revealed that the best sensing response is found from the Au-MoS2 hybrid (with an average particle size of 10 nm). This particular hybrid shows a 79% response to CO exposure and a 69% response to NH3 exposure. The measurements are about 3.5 and 5 times higher than the bare MoS2 when exposed to CO and NH3 at room temperature, respectively. This enhancement in sensing response is attributed to the modified interfacial interaction between the Au nanoparticles and MNF gets improved, which leads to the formation of a Schottky barrier, as confirmed using X-ray photoelectron spectroscopy (XPS) and Ultraviolet photoelectron spectroscopy (UPS) analysis. This enables the development of efficient gas sensors that respond quickly to changes in the gas around them.