Assuming that the train hasn't failed, sped up, derailed, or found another reason to go into an emergency stop. You could make all sorts of assumptions but people typically like their train control systems to fail safe.
> I'm not familiar with him, and Google isn't helping much. Any good references?
Literally the first thing that comes up for "bill wattenburg bart" sums up the experiment pretty well.
> Except there's no steering wheel
True.
> no pedestrians or cyclists
On a subway? Jumpers or aggressors. On at-grade systems? Cars, bicyclists, pedestrians, wildlife, you name it you'll see it on the tracks.
> no weather or visibility problems
Weather is a huge issue for BART even underground, and I'd assume that goes more for the New York MTA. Weather is less of an issue now for Muni, but some of the equipment used to mitigate the weather routinely damages the train control equipment. If you're expanding your scope to longer distance rail traffic, look up what British Rail called "the wrong kind of snow".
> no uncontrolled vehicle traffic
You'd be surprised what a drunk driver is capable of.
> and every bit of infrastructure is under your control at all times.
Ideally. New York is an interesting mishmash of territorial pissing though. See also: Penn Station.