Thank you for your help. I misidentified what I did. I used the button to the left of the engine ID button to build a train. Lionel has always referred to it as "TrainLink" when I have had conversations with service about the Legacy remote. When the engines are "train builder"ed together, the red reversing marker lights do not work on the new Atlas O F7A powered units. I am using the latest version 1.6 software.
The red reversing marker lights do work when the engine stands alone in ID #2. They don't work in "Train Builder". This is a problem for my Amtrak powered AA units. They absolutely need to be in train builder so they can run back-to-back.
My second Rio Grande F7A #5584 is unpowered, so that doesn't matter. I can put all powered unis in a regular ID #2 and run the ABB together in the same direction. The final F7A unpowered will trail behind.
The couplers on the non-powered F7A have an electro coupler and wires into the cab, but they can't be programmed because there are no guts in the engine: therefore, it has no operating coupler. The Run/Program switch turns the red marker lights on and off. The Cruise Control switch turns only a single headlight on and off. There is no MARS light on the unpowered F7A. The unpowered units do not have any instructions in the box.
I tried to reach Atlas O, but they only have one service man and he is out until Monday. I called other dealers, but nobody has opened an engine and run it yet. I apologize for my typos. I am upset after waiting so long for these engines and spending so much on my 22 California Zephyr and 17 Amtrak Atlas O passenger cars with Presier Seated figures. I have been working a long time on this project since the first release of the Atlas O passenger cars.