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The handheld unit does nothing but ask the ecu for info and then shows it to you. If you connect or disconnect it and the motor runs differently, you have a bad ground to the ecu most likely. The ecu must be trying to pull current through the communications cable's ground since the ecu doesn't have a good enough one. It's one of those paths of least resistance things. Make sure your ground wire is ran directly to the negative terimal of the battery and the positive, too.
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