Originally Posted by crocadoolie
Most likely one of the COP (Coil on Plug) has gone south on it. You should be able to get the code out as long as the battery has not been removed. On a good code scanner, you'll have a review freeze frame mode. Run that as it always keeps the info on the last code thrown. A blinking CEL indicates a non-emissions issue which is true for the misfire you have. Option 2 is to clear the computer by disconnecting the battery and stab the throttle. The misfire has to be pretty severe and continued to throw a code. Once you see the light pop on, even for a second, read the code and replace the COP and plug.
Motorcraft plugs only and might as well replace all the COP at the same time. Once 1 goes bad, they all like to follow along.