The Cobra computer has very weak fuel/timing curves. It pulls a ton of timing between shifts and it doesn't go out of emissions mode (closed loop) to "open loop" for performance until 7 seconds have gone by of wide open throttle. In other words, the Cobra computer is still trying to pass emissions until you get to the 1/8 mile.
I can't recall off the top of my head if it's your special Cobra 73mm MAF or the Cobra computer itself which is calibrated for 24lb/hr injectors. If it's the computer, your car won't run without a different MAF (Or recalibrated MAF) with a different Fox computer.
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