The fast and sensitive detection of methanol gas using cost-effective sensors in the industry is a significant issue to be addressed. Herein, a polyindole (PIn)-deposited substrate integrated waveguide (SIW) has been introduced to perform quantitative and qualitative methanol gas sensing with quick response and recovery time at room temperature. First, PIn is synthesized and deposited in the microwell etched at the intensified electric field region of the microwave-based cavity resonator, which gives a sensing response through variation of PIn's high-frequency conductivity and dielectric property caused by the adsorption and desorption of methanol gas. Second, an enhanced filling factor and high Q factor have been attained using the proposed microwell etched SIW structure, which exhibits high sensitivity in terms of frequency shift (3.33 kHz/ppm), amplitude shift (0.005 dB/ppm), bandwidth broadening (3.66 kHz/ppm), and loaded Q factor (10.60 Q value/ppm). Third, the gas measurement results reveal excellent long-term stability with a relative standard deviation (RSD) of 0.02% for 7 days, excellent repeatability with an RSD of 0.004%, and desired response and recovery time of 95 and 120 s, respectively. The results indicate that the proposed microwave sensor has great potential to achieve high sensitivity and fast response toward methanol gas molecules at room temperature.