Atmospheric CH4 observations from two ground-based stations within Indian subcontinent, namely, Sinhagad (SNG) and Cape Rama station (CRI) showed a strong seasonality with a minima (∼1800 ± 20 ppb) during southwest monsoon (SWM; i.e. June–September, JJAS) and a maxima (2000 ± 30 ppb) during northeast monsoon (NEM i.e. December–February, DJF) with a peak-to-peak seasonality close to 200 ppb. The Indian summer (winter) monsoon is characterized with strong southwesterly (northeasterly) winds of oceanic origin at the surface level and strong easterly (westerly) jet streams aloft. The monsoon dynamics has pronounced impact on CH4 variability over India and is analyzed with winds, Lagrangian trajectories, and 3-dimentional distributions of CH4 simulated by a general circulation model. The model simulations suggest a consistent annual vertical structure (mean and sub-seasonal uncertainty) of CH4 over India with a stark contrast in concentration from summer to winter at surface levels (below 750 mb) in confirmation with what is identified by the ground-based observations. During SWM (NEM) the air with comparatively lower (higher) CH4 concentrations from southern (northern) hemisphere reduces the CH4 over India by 1814 ± 26 ppb (enhances by 1950 ± 51 ppb). The contribution of local fluxes to this seasonality appears to be albeit weak as the synthesized CH4 fluxes (from EDGAR dataset) of the Indian peninsula itself show a peak in summer and a dip in winter. Similar property of CH4 is also common to nearby oceanic region (i.e. over Arabian Sea, 1765 ± 10 ppb during summer) suggesting the role of monsoon dynamics as the controlling factor. Further the mixing and convection carries the CH4 to the upper atmosphere and advect inward or outward aloft according the seasonal monsoon dynamics.