Axianator
I am a banana!
Can't believe I'm posting in this section, but here's the story. 
On Wednesday night, I decided to remove my upper intake for some plug gap measurements and valve cover cleaning (TB coolant line bypass was also performed while the intake was off). I was slow and careful during removal and installation but still ended up with a stumbling idle after reinstallation. Figuring a vacuum leak was to blame, I double checked my connections again this afternoon and noticed that the EGR-to-intake bolts weren't fully threaded into their holes, resulting in a teeny gap between the EGR and intake which created a vaccum leak. I tightened everything up and the stumbling idle was fixed. I let the car sit at idle for a few mintues before I left for my test drive, thinking that everything was golden. Right?
Wrong.
After a few minutes of a seemingly perfect idle (and no more stumbling around 400-600rpms like the night before), the stumbling returned right as I was about to leave. The engine would never completely stall, but it wouldn't hold an idle, either. I decided to shut to engine off and give it a few seconds before I restarted.
That's when it happened.
All of the sudden, as I restart the engine, I hear a strange knocking sound that wasn't present just a minute ago. The best description I can give is that it sounds as though something is rattling around inside the block and is not unlike the sound of a completely failed cam tensioner or chain. The sound is RPM-matching and will very rarely fade away and come back after I rev the engine. I've always heard a significantly softer version of this sound since I owned my SHO (sdpatt and I noticed it after my 60k in '02) but it's never been this loud or noticeable.
Regardless, I'm both stumped and very concerned. The engine was idling quietly one minute and making noises the next. I welcome any and all suggestions or ideas as to what could be causing this sound. The sound is present as soon as you start the car, is with you through-out the rev range and is concurrent with engine speed. It's pretty loud and, to the casual observer, can be heard from both the top and bottom of the engine.
Based on various searches I've performed, I've read the following may be possible:
- rod bearings or wrist pin failure
- loose spark plug that was not fully tightened
- bad or low octane gas
- hardened carbon deposits or other foreign material in the cylinder
- bad water pump or accesory bearing(s) or bolts
- other misc. things like a loose bolt, etc.
It should be noted that aside from the sound, the engine idles perfectly now. My rod bearings shouldn't be a concern since they were changed 10k and 6 months ago by TexanTony himself. Oil level is good although it'll need changing within a few hundred miles. Engine is otherwise perfectly healthy (sdpatt and Tony can attest to this) and is fed Castrol GTX 10w-30 with a Motorcraft FL-400S filter every 3k miles. The only plugs that were touched the night before were the front three (gap was measured and adjusted, plugs reinstalled) and the wires stayed on the coil pack. I am using 87 octane gas with this tank, but I've already put 100 trouble-free miles on this tank and I can't believe that the low octane would cause a sudden and unexplained knock like I'm hearing.
Any ideas what would cause a seemingly-fixed idle to start stumbling and then produce a sudden and consistent knocking sound?

On Wednesday night, I decided to remove my upper intake for some plug gap measurements and valve cover cleaning (TB coolant line bypass was also performed while the intake was off). I was slow and careful during removal and installation but still ended up with a stumbling idle after reinstallation. Figuring a vacuum leak was to blame, I double checked my connections again this afternoon and noticed that the EGR-to-intake bolts weren't fully threaded into their holes, resulting in a teeny gap between the EGR and intake which created a vaccum leak. I tightened everything up and the stumbling idle was fixed. I let the car sit at idle for a few mintues before I left for my test drive, thinking that everything was golden. Right?
Wrong.
After a few minutes of a seemingly perfect idle (and no more stumbling around 400-600rpms like the night before), the stumbling returned right as I was about to leave. The engine would never completely stall, but it wouldn't hold an idle, either. I decided to shut to engine off and give it a few seconds before I restarted.
That's when it happened.
All of the sudden, as I restart the engine, I hear a strange knocking sound that wasn't present just a minute ago. The best description I can give is that it sounds as though something is rattling around inside the block and is not unlike the sound of a completely failed cam tensioner or chain. The sound is RPM-matching and will very rarely fade away and come back after I rev the engine. I've always heard a significantly softer version of this sound since I owned my SHO (sdpatt and I noticed it after my 60k in '02) but it's never been this loud or noticeable.
Regardless, I'm both stumped and very concerned. The engine was idling quietly one minute and making noises the next. I welcome any and all suggestions or ideas as to what could be causing this sound. The sound is present as soon as you start the car, is with you through-out the rev range and is concurrent with engine speed. It's pretty loud and, to the casual observer, can be heard from both the top and bottom of the engine.
Based on various searches I've performed, I've read the following may be possible:
- rod bearings or wrist pin failure
- loose spark plug that was not fully tightened
- bad or low octane gas
- hardened carbon deposits or other foreign material in the cylinder
- bad water pump or accesory bearing(s) or bolts
- other misc. things like a loose bolt, etc.
It should be noted that aside from the sound, the engine idles perfectly now. My rod bearings shouldn't be a concern since they were changed 10k and 6 months ago by TexanTony himself. Oil level is good although it'll need changing within a few hundred miles. Engine is otherwise perfectly healthy (sdpatt and Tony can attest to this) and is fed Castrol GTX 10w-30 with a Motorcraft FL-400S filter every 3k miles. The only plugs that were touched the night before were the front three (gap was measured and adjusted, plugs reinstalled) and the wires stayed on the coil pack. I am using 87 octane gas with this tank, but I've already put 100 trouble-free miles on this tank and I can't believe that the low octane would cause a sudden and unexplained knock like I'm hearing.
Any ideas what would cause a seemingly-fixed idle to start stumbling and then produce a sudden and consistent knocking sound?
It doesn't sound like a spun bearing, I've done that once or twice on other cars (none of my Tauruses, knock on wood), and it didn't sound anything like that.