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Check for vacuum leaks.
Hey Dave, A visual inspection, and possibly a few test should narrow this down considerably, but without seeing the truck and performing the tests, it's extremely difficult. I suggest towing it to a shop and get it looked at.
The fuel pump is in the tank, and if the hose/pipe between the pump and the fitting on the tank has a leak, it can draw air into the fuel system, causing the problem you are experiencing. I would pull the fuel pump and check the pump and the hoses/pipes in the tank, make sure they are OK.
Check for trouble codes stored in the engine module, check that the software in the engine module is up to date and check the fuel mixture (trim) settings. Verify that you don't have any vacuum leaks or air leaks in the intake system.
There are several things that need to be checked to determine what the problem is. If one plug is black, I would focus on that cylinder and make sure it is mechanically OK. Also check the spark to the spark plug in that cylinder.
This will covered under your emissions warranty. You can learn more about the code here: http://repairpal.com/OBD-II-Code-P0301
Hello, Did you get this resolved? It sounds like a blown fuse, was that the case?
Hello, Did you find out why these problems with the alternator and battery are occurring? Where are you buying your parts?
Did you figure this out or did you end up taking this to the shop for repair?
Hello, did you find out what happened to your engine/ It doesn't seem like this would have caused any damage.