I currently have the same kind of knock in my 98. sounded like it came from the rockers. followed a ford mechanics advice and checked for loose or blown out spark plug. Not it. took off the valve covers and replaced the lifters/lash adjusters. not it either. He suggested isolating the alternator and other things driven by belt. I removed the belt, ran it for a few seconds. Not it.
I am at a point where I have spent so much time not finding it that I am beginning to think it is in the lower engine. Perhaps a rod bearing or something. Although it is consistent, changes with engine speed even when speeding up or slowing down or under load or no load. Does at times seem louder, but not really sure. Temperature does not seem to effect it.
The exhaust manifold gives me some hope. I will try the vacuum cleaner or plug it to see if I can hear or see any dark areas around the manifold.