I deleted all the codes, unistalled the JB4, putted everything back to normal except the angel eye lights and the CAI.
Started the engine and Service Engine Soon came back on, car vibrates as if it working only on 3 pistons.
I;m thinking it may be some wire that got lose/broken or something, I don't really know.
I'm really frustrated right now so I'm calling it a day, I'll deal with it tomorrow.
Thank you guys for all your help..