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Location wise your best options are going to be Hyatt Regency Tokyo and Hyatt House Shibuya.
Both are easy to get to from Haneda via the subway.
While I haven’t stayed at the Hyatt Regency Tokyo specifically, I’ve stayed around that area a couple of times and the immediate area is more business-like and a little sleepy at night.
However, Shinjuku is only one subway stop away so it’s still super convenient.
Looked at a map and Hyatt House Shibuya looks to be very close to Shibuya station, but it’s located on the side away from most of the nightlife stuff, so a little more walking, but still looks to be a good spot.
I personally would be fine with either, but staying at Hyatt House Shibuya will save you a couple of subway rides, while staying at Hyatt Regency Tokyo will save you some walking steps.
Definitely a hard no for me though to Hyatt Regency Yokohama or Hyatt Regency Tokyo Bay for just a one-night overnight stay.