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The Andaz Tokyo Toranomon Hills usually gets top ratings for the hotel, but Toranomon Hills is a bit out of the way.
I love the location of the Hilton/Park Hyatt/Regency because Shinjuku has connections to almost everything you would want.
I have done the Hilton Tokyo many times because I love the location and I love the breakfast for Diamonds, but here in a week I’ll be at the Regency because I wanted a suite for extra space.
The Westin Tokyo is not super convenient, it’s at Ebisu station, so you have to take a jaunt down the Hibiya or Yamanote lines to get somewhere.
The Conrad Tokyo is also a ride down the Yamanote to get places too.
Some depends on what you want to spend too.
The Andaz/Park/Conrad are all higher point properties, so at least with kids and trying to stretch those points, I always default down a tier or 2 to save for the next trip.