I've noticed an interesting behavior on my Ender 3 with SKR Mini E3 mainboard and Marlin 2.0.x bugfix firmware. (otherwise, all other hardware is entirely stock) After the hotend/bed are commanded to cool down, e.g. after a print completes, I have to wait until after they both cool down to ambient before commanding another temperature setpoint.
If I don't do this, the printer most often triggers thermal runaway protection. (usually citing the extruder, but also sometimes the bed) I think this might be due to the thermal inertia in the material between the heater and thermistors, causing a 5-10 second delay in sensed temperature rise. I don't see any reason why thermal runaway should trigger; the Octoprint temperature graph looks completely normal, with no perceptible anomalies.
Is there some way to tune parameters for thermal runaway protection to alleviate this false-positive situation?