The Jeep 4.0L straight six had both the exhaust and intake manifolds on the same side of the engine. Some models even had a problem or two from overheating the injectors due to exhaust manifold heat. The factory's fix for that was to insulate the affected injectors.
Although that old-school cast-iron six proved to be a great engine for pulling through the mud with all four tires spinning, alas it didn't do very well in regards to fuel economy. Pushing a square box through the air will do that.
The factory obviously didn't buy into the warm air intake being better for the Jeep. They located the air filter intake on the cool side of the engine. I guess heating up the intake air when you're doing three miles an hour in the muck might not always be seen as an advantage.
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