Of course, assuming they allow supersonic flights over the continental united states. I imagine it would probably be severely restricted due to the noise concerns from the sonic boom.
The great circle route from NYC to Tokyo flies over virtually no part of the continental United States, aside from New York. (Canada, on the other hand, would be below the plane for much of the trip, but is sparsely populated enough if the north that I suspect you could route around major population centers easily.)