i can vouch for the manifold issue it is pretty common,
ex. the ford 302ci as soon as u drive it off the lot it will have a tick in the exaust caused by a pin hole in the manifold, i would assume jeeps will eventually do the same.
myself i put a header on my jeep so dont have that issue...yet
a way to check is spray soapy water on the manifold (when its cold) and look for bubbles when u start it up
if not i would check lifters and such
hope it helps