Serious misfire issue
Hello. New to the forum and I need some help. Little back ground on the car first. It's a 2003 GT. I wrecked it pretty hard in October last year. Before that happened it ran strong and chirped the tires in third. The car sat for 6 months while the body was being fixed after wreck. It had to have new timing internals and cover put on due to damage from wreck. The car was running fine until recently. The CEL will start blinking and I will lose power for a short period of time, then the power returns and the CEL goes away. I check the codes using my SCT tuner and I get PO300, PO316, and random cylinder misfire codes. I get PO304 almost every time. First thing I did was change the plugs. They look terrible. Still get the misfire. Changed COP on #4 (w/motorcraft), still get misfire on that cylinder as well as others. I changed the fuel filter. The gas that came out was BROWN!!! I still get misfire codes. I'm wondering if the injectors are clogged after sitting for so long and running the dirty gas through them. I have ran a couple bottles of Lucas fuel injector cleaner through it but that is not doing anything.
I had to drive the car from Louisville, KY to Lima, OH today . The car ran like **** and I really don't think it will make the trip back to Louisville on Monday. I have used the search function and found some threads that had some good info but none that really touched on the problem I'm having. Some help on this issue is greatly appreciated.