Exhaust Some issues resolved but still running bad

This happens a lot, the issue is the members that respond may make suggestions that have been done or a modification far from stock, that renders the suggestion moot. Different year, model and engine size may have different wiring or diagnostic tests.
So I just took notice of something. The old platinum plugs that came in the car were only gapped to .040 and the new copper ones I bought were also at .040 so i, like a dumb ass, just installed them. I read that gap should be at .054ish. Could this be the cause of some of the bogging down after 2,000 rpms? What issues might this cause?
 
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Until you do the checklist you are stabbing in the dark.
So I went in and properly gapped all the new plugs. The cap and rotor I got were garbage so I returned it and have a motorcraft on the way. MSD was horrible and making the car sputter and misfire after 2,000. I put the old cap and rotor back on for now and it runs much better. So Im still waiting for a new O2 sensor harness, O2 sensors, all new injectors and ignition coil. While I'm doing the injectors I'm going to get back there and change the PCV valve and clean and tighten that HEGO ground wire. So as it sits right now. I did have code 33, 41 and 91. Then after some work I retested and got 31, 41 and 91. I erased all those codes and drove for about 20 mins and got 13, 31, 41 and 91. So I thouroughly cleaned the IAC and I also sprayed some electronic cleaner on the TPS sensor harness. After hooking everything back up I drove for about 30 mins dumped codes again and 13 was gone but now it has 32, 41 and 91. Any idea why that EGR code keeps changing? Also, when setting my timing, after it was set, I unplugged the IAC connector to see if it had any effect and it literally did nothing. Car idled exactly the same. Of course it's a bit too high around 850 rpms but it stayed steady.
 
Until you do the checklist you are stabbing in the dark.
So, I've gotten I'd of code 31. Still working on the others. Anyway, I've changed out my cap and rotor twice and each time it runs horribly. As soon as I put the old one back on, it's much better but still not perfect. Do you think codes 41 and 91 could effect this? Or what are your thoughts? It's a motorcraft distributor and I tried motorcraft and MSD cap and rotor and both of them caused the car to not run above 2,000 rpms. I've also done, pcv, no vacuum leaks, all hoses changed, new ignition coil, wires, plugs and new fuel injectors. Fuel pump and filter are good and fuel pressure is 33 with vacuum and 41 with vacuum off and plugged.
 
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Yuup, slowly running through it. The car runs really great and idles great, TPS is on point, I've also done, pcv, no vacuum leaks, all hoses changed, new ignition coil, wires, plugs and new fuel injectors. Fuel pump and filter are good and fuel pressure is 33 with vacuum and 41 with vacuum off and plugged.
 
Yuup, slowly running through it. The car runs really great and idles great, TPS is on point, I've also done, pcv, no vacuum leaks, all hoses changed, new ignition coil, wires, plugs and new fuel injectors. Fuel pump and filter are good and fuel pressure is 33 with vacuum and 41 with vacuum off and plugged.
Only thing I haven't checked is the computer connections. I'm worried about hooking a multi meter up as I've never done electrical stuff before.
 
Quick summary...
Codes 44 & 94 - AIR system inoperative - Air Injection. Check vacuum lines for leaks, & cracks. Check for a clogged air crossover tube, where one or both sides of the tube clog with carbon.

Revised 21 Sep 2012 to correct the description of the process that sets the code and include Thermactor Air System diagram.

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If you have a catalytic converter H pipe, you need to fix these codes. If you don't, then don't worry about them.

Code 81
– Secondary Air Injection Diverter Solenoid failure AM2. The solenoid valve located on the back side of the passenger side wheel well is not functional.

Code 82 – Secondary Air Injection Diverter Solenoid failure AM1. Possible bad wiring, bad connections, missing or defective solenoid valve. Check the solenoid valve for +12 volts at the Red wire and look for the Red/White wire to switch from +12 volts to 1 volt or less. The computer controls the valve by providing a ground path on the Red/White wire for the solenoid valve

None of the above codes will set the Check Engine Light or have any affect on a car with no catalytic converters. If you have catalytic converters, you need to fix the problems.



Thermactor Air System
Some review of how it works...

Revised 25 May 2019 to re-order paragraph sequence and add lean burn description for newer cars

The Thermactor air pump (smog pump) supplies air to the heads or catalytic converters. This air helps break down the excess HC (hydrocarbons) and CO (carbon monoxide). The air supplied to the catalytic converters helps create the catalytic reaction that changes the HC & CO into CO2 and water vapor. Catalytic converters on 5.0 Mustangs are designed to use the extra air provided by the smog pump. Without the extra air, the catalytic converters will clog and fail.

The Thermactor air pump draws air from an inlet filter in the front of the pump. The smog pump puts air into the heads when the engine is cold and then into the catalytic converters when it is warm. The air provided by the air pump serves to help consume any unburned hydrocarbons by supplying extra oxygen to the catalytic process. With a warm engine, the computer operates on closed loop mode, taking input from all the sensors.

The Thermactor control valves serve to direct the flow. The first valve, TAB (Thermactor Air Bypass) or AM1 valve) either dumps air to the atmosphere or passes it on to the second valve. The computer tells the Thermactor Air System to open the Bypass valve at WOT (wide open throttle) minimizing engine drag. This dumps the pump's output to the atmosphere, and reduces the parasitic drag caused by the smog pump to about 2-4 HP at WOT. The Bypass valve also opens during deceleration to reduce or prevent backfires.

The second valve, TAD (Thermactor Air Diverter valve or AM2 valve) directs it to the heads or the catalytic converters. Check valves located after the TAD solenoid prevent hot exhaust gases from damaging the Diverter control valve or air pump in case of a backfire.

Code 44 RH side air not functioning.
Code 94 LH side air not functioning.

How the O2 sensors affect the operation of the Thermactor Air System.
The computer uses the change in the O2 sensor readings to detect operation of the Thermactor control valves. When the dump valve opens, it reduces the O2 readings in the exhaust system. Then it closes the dump valve and the O2 readings increase. By toggling the dump valve (TAB), the computer tests for the 44/94 codes.

Failure mode is usually due to a clogged air crossover tube, where one or both sides of the tube clog with carbon. The air crossover tube mounts on the back of the cylinder heads and supplies air to each of the Thermactor air passages cast into the cylinder heads. When the heads do not get the proper air delivery, they set codes 44 & 94, depending on which passage is clogged. It is possible to get both 44 & 94, which would suggest that the air pump or control valves are not working correctly, or the crossover tube is full of carbon or missing.


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Computer operation & control for the Thermactor Air System.
Automobile computers use current sink technology. They do not source power to any relay, solenoid or actuator like the IAC, fuel pump relay, or fuel injectors. Instead the computer provides a ground path for the positive battery voltage to get back to the battery negative terminal. That flow of power from positive to negative is what provides the energy to make the IAC, fuel pump relay, or fuel injectors work. No ground provided by the computer, then the actuators and relays don't operate.

One side of the any relay/actuator/solenoid in the engine compartment will be connected to a red wire that has 12-14 volts anytime the ignition switch is in the run position. The other side will have 12-14 volts when the relay/actuator/solenoid isn't turned on. Once the computer turns on the clamp side, the voltage on the computer side of the wire will drop down to 1 volt or less.

In order to test the TAD/TAB solenoids, you need to ground the white/red wire on the TAB solenoid or the light green/black wire on the TAD solenoid. The TAB and TAD solenoid are located on the passenger side shock strut tower. Uneducated owners sometimes remove them to get more HP. This does not work, it just causes 81 & 82 codes.

For 94-95 cars: the colors are different. The White/Red wire (TAB control) is White/Orange (Pin 31 on the PCM). The Green/Black wire (TAD control) should be Brown (pin 34 at the PCM). Thanks to HISSIN50 for this tip.

Testing the system:

To test the computer, you can use a test light across the TAB or TAD wiring connectors and dump the codes. When you dump the codes, the computer does a self test that toggles every relay/actuator/solenoid on and off. When this happens, the test light will flicker.

Disconnect the big hose from smog pump: with the engine running you should feel air output. Reconnect the smog pump hose & apply vacuum to the first vacuum controlled valve: Its purpose is to either dump the pump's output to the atmosphere or pass it to the next valve.

The next vacuum controlled valve directs the air to either the cylinder heads when the engine is cold or to the catalytic converter when the engine is warm. Disconnect the big hoses from the back side of the vacuum controlled valve and start the engine. Apply vacuum to the valve and see if the airflow changes from one hose to the next.

The two electrical controlled vacuum valves mounted on the rear of the passenger side wheel well turn the vacuum on & off under computer control. Check to see that both valves have +12 volts on the red wire. Then ground the white/red wire and the first solenoid should open and pass vacuum. Do the same thing to the light green/black wire on the second solenoid and it should open and pass vacuum.

Remember that the computer does not source power for any actuator or relay, but provides the ground necessary to complete the circuit. That means one side of the circuit will always be hot, and the other side will go to ground or below 1 volt as the computer switches on that circuit.

The computer provides the ground to complete the circuit to power the solenoid valve that turns the
vacuum on or off. The computer is located under the passenger side kick panel. Remove the kick panel & the cover over the computer wiring connector pins. Check Pin 38 Solenoid valve #1 that provides vacuum to the first Thermactor control valve for a switch from 12-14 volts to 1 volt or less. Do the same with pin 32 solenoid valve #2 that provides vacuum to the second Thermactor control valve. Starting the engine with the computer jumpered to self test mode will cause all the actuators to toggle on and off. If after doing this and you see no switching of the voltage on and off, you can start testing the wiring for shorts to ground and broken wiring. An Ohm check to ground with the computer connector disconnected & the solenoid valves disconnected should show open circuit between the pin 32 and ground and again on pin 38 and ground. In like manner, there should be less than 1 ohm between pin 32 and solenoid valve #2 and pin 38 & Solenoid valve #1.

If after checking the resistance of the wiring & you are sure that there are no wiring faults, start looking at the solenoid valves. If you disconnect them, you can jumper power & ground to them to verify operation. Power & ground supplied should turn on the vacuum flow, remove either one and the vacuum should stop flowing.

Typical resistance of the solenoid valves is in the range of 20-70 Ohms.

What happens when there is no extra air from the smog pump...
As engines age, the quality of tune decreases and wear causes them to burn oil. We have all seem cars that go down the road puffing blue or black smoke from the tailpipe. Oil consumption and poor tune increase the amount of HC the oxidation catalyst has to deal with. The excess HC that the converters cannot oxidize due to lack of extra air becomes a crusty coating inside the honeycomb structure. This effectively reduces the size of the honeycomb passageways and builds up thicker over time and mileage. Continuous usage under such conditions will cause the converter to fail and clog. The extra air provided by the Thermactor Air System (smog pump) is essential for the oxidation process. It oxidizes the added HC from oil consumption and poor tune and keeps the HC levels within acceptable limits.
[
b]Newer catalytic converters do not use the Thermactor Air System (smog pump) because they are designed to work with an improved computer system that runs leaner and cleaner [/b]
They add an extra set of O2 sensors after the catalytic converters to monitor the oxygen and HC levels. Using this additional information, the improved computer system monitors the health and efficiency of the catalytic converters. If the computer cannot compensate for the added load of emissions due to wear and poor tune, the catalytic converters will eventually fail and clog. The periodic checks (smog inspections) are supposed to help owners keep track of problems and get them repaired. Use them on an 86-95 Mustang and you will slowly kill them with the pollutants that they are not designed to deal with.

Theory of operation:
Catalytic converters consist of two different types of catalysts: Reduction and Oxidation.

The Reduction catalyst is the first converter in a 5.0 Mustang, and the Oxidation converter is the second converter. The Oxidation converter uses the extra air from the smog pump to burn the excess HC. Aftermarket converters that use the smog pump often combine both types of catalysts in one housing. Since all catalytic reactions depend on heat to happen, catalytic converters do not work as efficiently with long tube headers. The extra length of the long tubes reduces the heat available to operate the O2 sensors and the catalytic converters. That will cause emissions problems, and reduce the chances of passing an actual smog test.


Now for the Chemistry...
"The reduction catalyst is the first stage of the catalytic converter. It uses platinum and rhodium to help reduce the NOx emissions. When an NO or NO2 molecule contacts the catalyst, the catalyst rips the nitrogen atom out of the molecule and holds on to it, freeing the oxygen in the form of O2. The nitrogen atoms bond with other nitrogen atoms that are also stuck to the catalyst, forming N2. For example:

2NO => N2 + O2 or 2NO2 => N2 + 2O2

The oxidation catalyst is the second stage of the catalytic converter. It reduces the unburned hydrocarbons and carbon monoxide by burning (oxidizing) them over a platinum and palladium catalyst. This catalyst aids the reaction of the CO and hydrocarbons with the remaining oxygen in the exhaust gas. The "lean burn" technology of newer cars means there is more O2 for the oxidation process to work with.

For example:

2CO + O2 => 2CO2

There are two main types of structures used in catalytic converters -- honeycomb and ceramic beads. Most cars today use a honeycomb structure." Quote courtesy of How Stuff Works (HowStuffWorks "Catalysts")


Code 45 & 46 are very uncommon, this is the first time in 20+ years here at Stangnet that I have seen them posted.

The TAD solenoid and its plumbing are the probable source since it appears that the TAD solenoid is stuck open during self-test. Check for vacuum at the Diverter valve when running the self-test routine.
So I'm curious, I started with my car having a 29, 31, 41 and 91. I've since gone through almost everything that might cause these issues short of checking the computer pins. I don't want to mess anything up. I still has the smog pump and charcoal canister. Anyway, I've replaced every vacuum line in the car, I put on a new EGR and position sensor, I've replaced both O2 sensors with bosche and also replaced the O2 wiring harness. It definitely needed it as the old one had been cut into, I removed the upper intake and replaced all 8 injectors with factory 19# injectors. I installed all new gaskets for the upper intake. I've done Ford wires, copper motorcraft plugs and a new motorcraft ignition coil. I've done the radiator, fans, thermostat and water pump. No more overheating. I plan to just install a new speed sensor and cable as the speedo doesn't work at all and my goal is to eventually have almost all new items on the car. So....after all that work I was able to get rid of code 31. I'm still stuck with 41 and 91. After changing the O2 sensors yesterday I noticed 41 went away but came back today. So, short of checking the computer and thermactor tube for clogs I think I've done everything. No more gas smell or overwhelming smell of exhaust. The car runs a ton better but still has a few issues, it sputters like I hit a rev limiter at 4,000 rpms and I've tried 2 different cap and rotors, when I put the new ones on it does the same hesitating and sputtering but at 2,000 rpms. When I was doing the O2 sensors yesterday I also noticed that I definitely have aftermarket exhaust and only one cat per side. Whoever installed it routed the thermactor air tube to just the passenger side cat and hooked it straight up to the cat, not before it. There's also a leak in the thermactor tube before the cat. Could the leak, or the fact that it's only hooked up to one side be my problem? Any other advice would be greatly appreciated. You have definitely been the most helpful person on here. Thank you!
 
So I'm curious, I started with my car having a 29, 31, 41 and 91. I've since gone through almost everything that might cause these issues short of checking the computer pins. I don't want to mess anything up. Not very electrical savvy. I still have the smog pump and charcoal canister. Anyway, I've replaced every vacuum line in the car, I put on a new EGR and position sensor, I've replaced both O2 sensors with bosche and also replaced the O2 wiring harness. It definitely needed it as the old one had been cut into, I removed the upper intake and replaced all 8 injectors with factory 19# injectors. I installed all new gaskets for the upper intake. I've done Ford wires, copper motorcraft plugs and a new motorcraft ignition coil. I've done the radiator, fans, thermostat and water pump. No more overheating. I plan to just install a new speed sensor and cable to correct code 29 as the speedo doesn't work at all. So....after all that work I was able to get rid of code 31. I'm still stuck with 41 and 91. After changing the O2 sensors yesterday I noticed 41 went away but came back today. So, short of checking the computer and thermactor tube for clogs I think I've done everything. No more gas smell or overwhelming smell of exhaust. The car runs a ton better but still has a few issues, it sputters like I hit a rev limiter at 4,000 rpms and I've tried 2 different cap and rotors, when I put the new ones on it does the same hesitating and sputtering but at 2,000 rpms. When I was doing the O2 sensors yesterday I also noticed that I definitely have aftermarket exhaust and only one cat per side. Whoever installed it routed the thermactor air tube to just the passenger side cat and hooked it straight up to the cat, not before it. There's also a leak in the thermactor tube before the cat. Could the leak, or the fact that it's only hooked up to passenger side be my problem? Any other advice would be greatly appreciated. P.S. I also have an A9S computer not sure if they're more sensitive to lean or rich codes being a California computer? IDK
 
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Well, as it stands right now. I got so pissed that with everything I was still getting 41 and 91. As I said before the thermactor tube was leaking exhaust because the previous owner(s) installed a complete exhaust minus headers and had cut into the new cat and welded the thermactor tube to only the passenger side cat and left the two tubes just dangling with no actual seal. So it was leaking exhaust and letting in a bunch of air. So I removed the smog pump and all the related tubing, plugged the holes and crimped the exhaust tube. Low and behold, no more codes. I went on a two hour drive tonight and had no issues other than a bit of hesitation at about 4,200 rpms. I'm going to weld that tubing tomorrow as its only crimped now. In the next month I'm removing the cats so no big deal there.
 
Any ideas anyone? Everything for the fuel system and ignition system is new besides the actual distributor, pressure regulator and the TFI. Still hesitating and sputtering at 4,000 rpms. All codes remedied. New fuel pump, fuel filter, fuel injectors, cap, rotor, wires, plugs, pressure regulator is holding it steady at 41psi, new ignition coil, all new vacuum hoses, new EGR and position sensor, new PCV, valve screen and grommet. Just a bad cylinder or could it be distributor it self or tfi? Anyone?
 
Any ideas anyone? Everything for the fuel system and ignition system is new besides the actual distributor, pressure regulator and the TFI. Still hesitating and sputtering at 4,000 rpms. All codes remedied. New fuel pump, fuel filter, fuel injectors, cap, rotor, wires, plugs, pressure regulator is holding it steady at 41psi, new ignition coil, all new vacuum hoses, new EGR and position sensor, new PCV, valve screen and grommet. Just a bad cylinder or could it be distributor it self or tfi? Anyone?
Side note, dumped codes. Got nothing but 44 and 94 CBT came back 9 across the board.