AbstractTime series of soil CO2 efflux recorded in the Azores archipelago volcanic‐hydrothermal areas feature daily and seasonal variations. The recorded CO2 efflux values were lower during summer than in the winter season. The diurnal CO2 efflux values were higher at dawn and lower in the early afternoon, contrary to that observed in biogenic environments. CO2 efflux cycles correlated well with the environmental variables, such as air temperature, wind speed, and barometric pressure, which also showed low‐ and high‐frequency periodicities. Several simulations were performed here using the Transport of Unsaturated Groundwater and Heat 2 (TOUGH2) geothermal simulator to complement the study of Rinaldi et al. (2012). The effects of the water table depth, air temperature perturbation amplitude, and soil thermal gradient contributed to an explanation of the contrasts observed in the diurnal (S1) and semidiurnal (S2) soil CO2 efflux peaks for the different monitoring sites and seasons. Filtering techniques (multivariate regression analysis and fast Fourier transform filters) were also applied to the recorded time series to remove effects of external variables on the soil CO2 efflux. The resulting time series (the residuals) correspond to the best approach to the deep‐seated (volcanic/hydrothermal) CO2 emissions and thus should be used in seismovolcanic monitoring programs. Even if no evident correlation can be established yet between the soil CO2 residuals and seismicity over the monitored time, a seismic swarm that occurred around the end of 2008 might have triggered some deviations from the observed daily cycles.