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Well, with all this walking you might as well just forgo seating altogether. :dubious:
Certainly all aspects of having passengers moving between cars during transitory coupling would be a significant factor in the design of the cars. I personally imagined having two aisles, one for each direction of foot traffic.
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How wide are these cars again? With two aisles, presumably a row of standing people between them (for other people to shove through), and did you still want seating along the side walls?
Admittedly maybe subway cars/tunnels are that wide; I’m in Boise and the closest we get to a subway system is that some of us have basements. Regardless, I’m just pointing out the small problems with the system along with the large.
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Most subways I’ve ridden on would benefit from making it clearer where the cars are going to stop. Granted that’s as a tourist, with daily use the quirks of the systems would probably have become clear.
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You didn’t have to run along the train hoping against hope to get to your car before the doors closed and it (or you) dropped off the back of the train, though, I bet. 
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You don’t have to keep moving around unless you want the non-stop ride. Basically, all you’d have to do is verify that the car you’re in will stop at the station you want, and move to the other half of the train if it doesn’t. Then you can treat the system the same as any other subway system (e.g. sit down and wait for your stop). It’s faster, though, because the car skips half the stops.
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How many cars does a subway train usually have? How many cars are we loading/unloading per stop, again? And remember, you have to wait until your exit car is picked up before you can move forward onto it. If it’s going to be added before your entry car is dropped, you could theoretically wait until it was added on, and then race along the train to get there before the train gets to that stop - but in reality you’d see your cars filled with people shuffling forward constantly as cars were picked up, to avoid being dumped off early - until they got to their car, that is, at which point they’d likely stop in the aisle and block the progress of people who need to keep moving forward, knowing people and the likely amount of seating.
I predict a lot of fistfights on this train.
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About “engine cars”… I’m under the impression that on many systems each car has electric motors that propel each car. I can’t recall seeing any system that has identifiable “engine cars”. I have seen cars modified to have a conductor’s box… but this looks like a superficial modification with no clear benefit (I assume it’s because of a train worker’s union/lobby keeping laws that say the trains can’t be fully automated).
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Illusion of saftey. Cows on the (subway) track and all that; you need a human watching out the front so that you know he can slam on the brakes and reduce the speed by seven miles per hour before you plow into whatever obstructions you come across.
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In the highly optimized variable length system with the number of cars in the train changing through-out the day to accommodate the shape of traffic, it would probably be preferable to have a highly automated set-up.
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I concede that it should be fully automated, of for no other reason that the driver would have to keep moving forward too.. That’s clearly a comedy sketch gone wrong, so I agree that if this system were done it would have to be automated - though you’d probably still want to station a man on each car to keep people moving and break up fights.