The air and water sensors, if not in a loop, are reading ambient... the aquastream, fan amplifiers and I believe the mps sensors, are reading the respective electrical component's temperatures, so yes, there should be a difference between the two sub-sets.
Even if the computer and all components, except the PSU and the USB connection to the Aquaero is turned off? Unused electronic circuits shouldn't create heat, unless the Aquabus connection keeps them alive, and feeds them enough electricity to generate it. I have a hard time believing this, even if they are kept alive, should be sufficient to create so high temperature differences?