I still don't see how a mis-aligned hood could hurt it, seeing how the solution (at the present time)
is to "throw wide open the doors".
Yes, I understand in proper operation, it's a baffled wind tunnel. Precisely designed to channel
air to the proper places.
Might the exhaust be leaking ? Manifold gasket, manifold crack, or just upstream of muffler ?
That would dump some heat in the area, that removing the cover is somehow fixing..
If the hood is not sealing properly around the perimeter, the air flow could be escaping around the edges instead of pushing the heat out the back of the enclosure... it's a reach, but when you have overheating without obvious cause on a near new machine, you gotta consider all the possibilities....