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My car is running speed density with the AEM. When I didn't have intake pipes removing the need for the MAF sensor to just hold a place, I had it plugged in till I noticed with it plugged in, it was tossing off the signal from my air temp sensor. Plugged in, the air temp sensor always read one temp no matter what was going on.
There is an air temp sensor in the OEM MAF. If the AIT in the manifold is spliced into this wire (as it probably is) you have two resistors hooked up in parallel and results will be weird.