My opinion: the FJR would be a poor choice for NYC commutes. Too big, too top-heavy, too valuable to leave parked on the street or sidewalk. If you buy one, buy it for NYC 'escapes', and park it indoors.
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I commute on my FJR occasionally, but this is Atlanta and I'm riding on freeways with a minimum of four lanes going one direction. Atlanta is also built for automobiles, so there's always maneuvering room for the big-girl FJR.
During the six months I worked in Manhattan, I could not comprehend anyone commuting with any type of private vehicle; I commuted weekly from Boston via Amtrak, and walked or MTA-ed everywhere else.