Get the car tuned or put it on Cobb AP v2. But it's kinds of late for that now.
Long story but it's true, the Tuners have found the flaw and have fixed it.
There threads here about just flashing cruise light's. I know how to fix it on a 5mt, I don't read much about 5eat but I seem to recall a thread about it.
Oh yes that's normal for the cruise to flash when you get a CEl, I thought you now, only have a flashing cruise and no CEL.
Moving forward, if the missfire comes back, have a compression test done.
You say the coils are fine. They moved the injector and code did not follow. Next in IMO is compression test and may be a leak down test.
miles 5/2012 ej257 short block, 8/2011 installed VF52 turbo, @20.8psi, 280whp, 300ftlbs. CHECK your oil, these cars use it.
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