In chasing my P1128 and P1130 issues I had some similar rough running issues after resetting the codes with the Durametric. On the first startup after clearing the codes the car ran rough and threw a momentary engine knock code. I thought I had a bigger problem than just the original codes.
It turned out I needed to let the car idle for a good 5-10 minutes to let everything recalibrate. To see part of this calibration after clearing the codes with the Durametric, start the car and watch the fuel trim values cycle up and now before they settle in.
Additionally I believe your car has the e-throttle or whatever it is called. There is separate calibration of that I believe whenever the battery is disconnected. My 99 doesn’t have it, so I only have passing knowledge of it.
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