In underground cavities, temperature variations of the order of 10-3 °C are permanently induced by the variations of atmospheric pressure, even at great depths, with couplings of the order of 0.2 to 20 × 10-3 °C/hPa depending on frequency. In the first part of this study, we established the atmospheric pressure to temperature transfer function (TF) as a function of frequency from 8 × 10-7 to 8 × 10-4 Hz. Here, we use this TF to calculate the expected PIT variations, which, after being subtracted from the observed time-series, provide residual temperature time-series. We calculated such temperature residuals in four natural caves in France: Esparros, Aven d'Orgnac, Pech Merle and Chauvet-Pont d'Arc Caves, the last two containing unique prehistoric wall paintings. Temperature signals, as small as a few 10-3 °C, due to human presence, are then conspicuous, with evidence of relaxation longer than several days and long-term cumulative effects. In addition, we observe temperature signals suggesting non-stationary states characterized by several processes which are not necessarily easy to separate, such as transient air currents, due to barometric winds or locally semi-confined convection cells, transient infiltration, or energy dissipation by evaporation-condensation at the rock surface. This background thermal agitation displays a scale-free amplitude spectrum, from 2 × 10-5 to 4 × 10-4 Hz, of the form f-α, with α varying from 0.1 to 0.6 depending on the site. Furthermore, at the Chauvet Cave, a weak but unambiguous peak emerges during some months at a period of about 82.2 ± 0.8 minutes, suggesting a Helmholtz-type resonance. Small but significant temperature signals are therefore detected in underground cavities once the effect of atmospheric pressure variations is corrected for. These signals reveal subtle coupled processes whose knowledge is essential to evaluate preservation strategies and to establish conditions for resilience of underground systems under artificial or natural influence including climate change.< Réduire