08 5.4 Supercrew
I experience the same symptoms in my truck and only on #2 tune. It doesn't do it on tune 1 and 3. Since 2 is for towing, I just decided not to use it unless I'm towing, which isn't too often. And when running on #2, and the truck misses, I usually pull over immediately, turn off the truck and it stops the rough running for another two weeks or so.
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