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99 OBW hesitation

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So I have this 99 OBW dual sunroof. Last fall I replaced the 2.5 with a low mileage 2.2-non egr(At the time the car was an automatic). It ran great, no issues. Over the winter I converted the car to a 5 speed.(full wiring harness/component swap). I also added the egr to the engine at the same time.

Soooo the problem is that when I accelerate there is a slight jiggle/hesitation like when you have a bad sparkplug wire. The problem seems most prevalent between 2300-3100 rpm and is noticeable in all gears but more so in lower gears. It doesnt happen all the time and is less likely when engine is cold but it still does ti then too.

I have put in new plugs( ngk irridium) three sets of wires (used but assumed good) and 3 different complete intake manifolds, injectors and all. NO DIFFERENCE.

I had a 96 legacy 5sp that had the same issue but i sold it before I fixed it.

Any thoughts????

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Also I think my gas mileage has decreased. Hard to tell since i have the 99 no spedo no-workie problem.

O2 sensor?

coil pack or igniter?

any check engine lights?

bad/water in gas?

 

EJ engines often are problematic with aftermarket wires, but 3 sets would be very odd.

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