Help! Engine misfire 2000 Mustang 4.6

I just installed a rebuilt 4.6 in my 2000 Mustang. It seems to have a miss. When I check the long tube header tubes on the passenger side they are room temperature, the ones on the drivers side 200+ degrees. It seems like the passenger side of the engine is not running. I have checked all of the coils and plugs - they are sparking, have checked the fuel injector plugs with a noid light - checked out ok. The compression checks out fine. Any ideas what to check next?
 
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Check application of injectors/COP

Help me understand the problem. There is absolutely no fire at all on the right side? However, a compression test of all of the right side cylinders is OK. Further, a noid light on the fuel injectors indicate the fuel injectors are firing. Followed by a noid light on the COP indicates the PCM is signaling the COP’s to fire.

If all of the above is true, this is what is left.

1) All of the right side fuel injectors are defective.
2) The right side fuel injectors are the wrong type. Some Ford applications have the polarity reversed (same plug).
3) The right side COP are the wrong type. I seam to recall that some applications have use the same plug but reversed polarity. This would give a good indication on the noid light but would not actually fire.
4) All of the right side COP’s are defective. Check High voltage side for actual spark. The boot is fragile and rough handling can damage.
5) wiring modification has reversed polarity of fuel injectors or COP (not likely).
6) PCM totally mess up timing wise. The tests done check for a signal. However, how do you know it is correctly timed? How does the engine run? Smell fuel?

Anything else changed during the install? Any problems? Where did the parts come from?

The fact the compression tests OK would indicate the motor is basically good mechanically. Unreasonable to think a CAM/valve problem.

If you do not smell fuel, then look at the fuel system. If you smell fuel, look at the ignition.
 
I tested the coils in their location using one of those test sparkplugs. All seemed to have a pretty good blue spark. The coils are all original Ford units, the injectors are original Ford too. I tried one brand new injector on the side that is not running. The wiring harness is original. The headers are room temperature on the passenger side - indicating that there probably is no fire. I can't smell much at the tailpipe. The side that is running (drivers) has condensation coming out of the pipe, the pasenger side is dry. Maybe I will try moving coils and injectors from left side to right side. The plugs are brand new. Cam chains and tensioners are new, cams looked ok - double checked the cam timing at assembly.
I was wondering if bad O2 sensors could shut down the one side? Could they make it go lean?
 
The lean/rich limit is 25%. After that, the PCM will throw a code. Even at 25% lean, the headers would still be hot.

Regarding the compression test. Was it a leak down test or the kind where the motor is turned over? What were the results?

I have got to believe that if the fuel injectors were working, you would smell fuel.

Can you monitor operational data with your scanner? If so, log the O2 values and compare the two sides.

The PCM has to be throwing codes. What are they?
 
I don't have a scanner, will have to rent or borrow one. Would there be codes to read even when the check engine light has not come on yet?

The compression test was the leakdown type where I screwed the gage into the plug hole and then cranked the engine. It was around 115 lbs cranking for about 4 or 5 revolutions - didn't squirt in any oil. The rings are brand new (fitted) and haven't been broken in yet. I was mainly checking it to verify the cam timing was ok. The heads have been rebuilt and have new exhaust valves.

I think the fuel rail is ok, the fuel enters on the passenger side (which is not running) and then crosses over to the drivers side (which is) via the rubber tube.
 
Ok, I moved the coils and injectors from the drivers side to passenger side. No change - passenger side headers still cold. I noticed the large harness connector in the right corner of the engine bay had some corroded pins. Did a quick cleaning and still no change. I'm going to do a better cleaning and see if that helps.
 
Ok, I loaned a scanner from Autozone. No codes are showing. after running the engine for 10 mins or so. Jeeezz, I was hoping for a some clues. I cleaned all of the electrical connectors under the hood. No change, the headers for cyls 1,3,4 still at room temp when running cyl 2 maybe 10 degrees warmer. the headers cyls 5,6,7,8 are 180+ degrees. It does smell like raw gas out of the exhaust. The engine starts like the timing is advanced it kind of kicks back near the compression stroke, but does start ok.
 
Check CAM timing

I have done some additional study of the wiring diagrams. Personally am perplexed by your symptoms. Since you have asked for an educated guess, here goes my attempt to knock this one out of the park.

Refresh and go back over the details. No fire at all from the Right side. Some kick back during starting. Back to the basics. Fuel, Air, Spark, Timing (FAST).

A dynamic compression tests is OK. This would rule out valve and cam issues.

Previous posts state that you do smell fuel. This would indicate the fuel injectors are working.

Cylinders 5-8 are working. In addition, the PCM is communicating with the scanner. IMO, this would rule out anything but a one in a million PCM problem.

We believe that the COP’s are firing. What we don’t know is if they are firing at the correct time.

This gets back to timing. Let’s look at the things that could cause timing to be off on a complete bank. One thing that comes to mind is CAM timing. Since a dynamic compression test is good, we can assume the mechanical timing of the CAM is good.

But what about electrically? What if the CAMs themselves are timed correctly but the CAM gear is not? There is a raised piece on the CAM gear that is used to tell the PCM the position of the CAM (CAM sensor). If this is not in the correct position in relationship to the crank position sensor, it seams like this could cause some real problems.

Who timed this engine after the re-build? Were the recommended procedures followed? Were the correct tools used to hold the CAM and crank shaft when the chains were installed?

If it is NOT the CAM timing, let’s concentrate on the things common to the 1-4 COP’s. Splice S171 (engine, top, Right) supplies power to the Right side COP’s. However, unless something happened to damage the harness, a splice failing is a long shot. However, it is worth investigating.

The next thing common is connector C133. It is a large square connector located engine compartment, right side, rear. Your previous posts stated corrosion in this connector. CLEAN, CLEAN, CLEAN and CLEAN some more. Use electrical cleaner (brake cleaner not recommended). Another option is to use MAF cleaner. Afterwards put some dielectric grease on it.

I have some diagrams that may be of help.

<cutesy quote for the day>
Remember, there is no elevator to success. You have to take the steps.
 
The cam sensor is on the drivers side bank, cy 5-8 so if 1-4 are cold then the cam can be out of time but the computer won't have a clue. There is a good chance that if the cam is indeed out of time only on the pass side (bank 1) that the valves and pistons have meet.

Op, you need to pull the front cover off and verify visually that the cams are timed. The easiest way to do that is to set the marks at wmburns described above at 10 o'clock and 2 o'clock. (raised bumps on the outside of the cam gears) Once they are at 10 and 2, visually count how many links are on each side of the chain down to the crank sprocket, There should be an equal amount on each side. The crank sprocket has a mark on it to tell you where the middle is. The link that is on the markers on both the cam and crank sprockets don't count when your counting... does that make sense. Someone help me explain this here.... I can do it much easier than explain it.
 
I installed the cam timing chains myself. Let me know if this sounds right. I never removed the gears from the cams during the rebuild. This engine is a SOHC so I didn't think I needed The clamp that holds the cams in place as is needed for the DOHC. I bought new Melling timing chains which have 2 blue links that line up with the marks on the crank and cams. I rotated the cam and crank so that the marks were opposite each other (on the center of a line that would go through the centers of the crank and cam) and then put the blue links of the timing chain on the marks of the cam and crank. I rotated the engine by hand 10 revolutions or so until and saw the blue links line up with the cam and crank marks again. The valves didn't hit the pistons indicated everything was ok.
 
Could someone help me understand how it is possible for a 4.6 modular motor to have good dynamic compression but fail a leak down test? And further, to have a problem that is so profound that ALL 4 cylinders do not work?

Squeak93 stated in a way that I thought about but did not put on paper. The Right bank is out of time. It is not so much out of time to have PTV contact. But since the cam sensor is on the LEFT side, the PCM is able to adjust enough to allow the left side to function. The PCM ASSUMES that the right is in time.

Further, is 180 degrees hot enough for a set of working headers? IMO the left side is not working as it should. The headers should be hotter.

What if the cam gear has slipped on the cam itself? The OP stated that was not removed during the rebuild. However, this then ASSUMES it was correct in the first place.

Doesn’t the timing procedure start with #1 being TDC and then backing up by 90 degrees?

Does this engine have removable cam gears? If you say “yes”, consider that the 2000 Mustang originally came with a Windsor engine. The Windsor had pressed on cam gears (not removable). This adds credence to the possibility of cam gear slippage.

I also recall reading an article in Engine builder about mixing matching parts from different model year modular engines. The jest of the article stated there were subtitle changes in the crank shaft timing trigger, timing adjusters, and various other parts. The article advised against mixing parts from different model years.

I really feel that something is wrong in the cam timing or how it is put together. Otherwise, there HAS to be an error in one of the other base assumptions (working COP, working fuel injectors, good dynamic compression).
 
I was thinking about the cam timing. I timed the cams in relationship to the crank, but now am thinking that the second cam has to also be timed in relation to the 1st cam. I bet the passenger side is 180 degrees out of sync with the drivers side.
 
That's it! cam 180 degrees out of sync

Right cam 180 degrees out of sync. Now that makes sense! Mechanical dynamic compression would be ok. Fuel injectors work. COP's work. I was honestly thinking about 1 or 2 notches out of sync. But 180 degrees would explain everything. No PTV contact. But the injectors would fire while the intake valve is closed.

Ok, I didn't hit that one out of the park. If it turns out to be true, do I get credit for a triple? Double?