I have a 2001 f150 with the 4.6 and it has 181,000 miles. I have the gotts intake, a ported and polished throttle body and elbow, and I put my truck back to stock and the pulse light on injector 6 is not doing good in drive and the other gears it is good

 

What is meant by putting truck back to stock?
Injectors don't work differently in any different gear or in reverse.
Do you have a code 306?
You need to be more clear about what was done and the condition you now have.
Good luck.

 

the injector over cylinder 6 did not pass inspection with the pulse test. the light was brighter and was causing a misfire and I switched injectors around and still the same

 

yes you need to look for the cod 306 put a code reader on it ???

 

my truck didn't throw a code. it was acting like a bad cop

 

If the injector is not working you will see code 306.
Be sure rather than put trust in only the Noid test.
A 306 code sets from either no ignition, no injection, faulty coil, faulty plug, faulty cylinder, or either a coil driver or injector driver in the PCM is faulty, or any harness or connector issue in these circuits.
This is why you need to check out and be sure what the cause is.
Good luck.

 

what should I do if the pcm is faulty? my truck has 181,000 miles on it

 

Why the question before you find the fault?
It cost money and a hassle to replace the PCM on just guessing and hoping..
Diagnostics has to be done before any actions are taken or you don't know what your doing.
To check the injector driver, you need an Ohm meter to look back through the harness at the injector driver for being either shorted or open. It should read about 10,000 ohms +/-. That is neither shorted or open, but a way provided in the design to do an outside test.
The driver is what puts a ground out to the injector to make it open in the firing sequence.
Compare cylinder 6 to other cylinders' injector drivers. If not the same , it's suspect or a harness problem.
Good luck.