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Does your remote have an LED indicator on it to show when a button is pressed? Some of the earlier ones did not.
Do the doors lock and unlock with the remote? You are just saying that it does not "beep" and show the flashing light on the driver door, correct? If you have a door open anywhere, or the rear hatch, or the hood, or even if the stock radio is not seated properly, it will not arm the alarm, until it sees everything "closed".
Before you changed the batteries, had the remote been working at all? Sometimes the range is bad and you have to get really close to the car for it to work if the batteries are low.
Does the remote with new batteries lock and unlock the doors? There is a difference between locking the doors and arming the alarm system- if a door or trunk is open, the doors may lock but the alarm will not arm until all are closed. Arming is indicated by the alarm "beep" and headlights and tail lights flash
No, there is no "dealer only" reset. If it was working before the batteries were replaced, there is no good reason it would not work after. I have seen issues with DISarming the alarm after replacing the car battery, but unlocking the car manually and then reconnecting the battery usually takes care of that.
I have asked you if the remote locks or unlocks the doors- you just keep saying the alarm does not work. The two are separate but related- does the remote work to lock or unlock the doors, or open the trunk hatch?