There may be an intermittent three- to five-second delay between when you turn the key and when the engine actually cranks. If the Check Engine Light illuminates, have the brake switch inspected. Otherwise, simply update the PCM software.
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If the battery is disconnected, the express windows will need to be recalibrated in order for the express function to work. First, run each express window to the fully-closed position. Hold the switch for at least two seconds before releasing. Repeat this procedure, running the windows to the fully-open position. If the ESP light illuminates, the steering angle may also require recalibration.