Solution : It was the injectors.
So after you tear down your truck and remove the old injectors and prepare to start installing your new injectors, MAKE SURE you oil the orings on the injectors very good (this will help with easier installation). Push your injector straight down until you hear a snapping noise. I believe this noise is the copper ring making direct flush contact with the bottom of the injector sleeve. (Quick check) Make sure there are no old orings or copper rings in the injector sleeve before you go to insert the new injectors. If you do not hear that snap sound pull the injector and reseat it until you HEAR it seat properly. This will save you much trouble rather than putting your injectors in and finding out that they are not seated properly and you have fuel spraying into your valve cover and mixing with your oil. Take it from someone who made this mistake, it sucks! However, once you have your injectors in and seated correctly and the rest of the engine put back together be prepared for hard shifts and air in your lines. Before you start and run your truck change the fuel filter. It should take about 100 miles give or take some..to get the air out and for your tranny to act properly. If your truck loses power after 300 or so miles change your fuel filter again. I had to do this because of bad fuel. Even tho I drained the lines and the fuel tank, I believe there was still sediment. So, I ran the truck for awhile and it started to bog down again. Simple change of the filter was all it needed. I hope this helps anyone that has an injector issue. I know that in my search of figuring out what was wrong with my truck, I got really annoyed by the fact that people would post and post and post about their problems but never put a resolution to that problem.

TRUCK YEA

 

First, transmission shifting hard after injectors has nothing to do with air

Second, NO it does not take 100 miles to get the air out.

Third, and I think this is the big one we're all thinking around here. STEP THE FRAK AWAY FROM THE INNOCENT POWERSTROKE AND BY A 350 CHEVY!!!!!!!!!!!!!!!!! Your incompetence for working on this vehicle is LEGENDARY!!!!

 

Not sure why your having fuel filter issues.... I've changed three sets of injectors in my truck with the same fuel filter... Also, like smokey said, your trans shouldn't change with the injector swap...

 

All the diesel mechanics I talked to said you would have hard shifts at first...and literally only like four or five. But they all said it would happen. The fuel filter issues was from bad fuel the filter was wasted but never changed. And your right I dont have very much knowledge about diesels actually NONE...but I do know that I successfully changed my injectors and for only having the truck for less than a month with this happening Id say that that's pretty freaking good. Thanks for your comment tho seriously helpful. Might just think about that Chevy