I believe the Taipei Tokyo in Davis is the only one in the Boston area, but there is also a restaurant by that name in Northampton, MA. The Northampton location predates the Davis one by many years. I have not personally discussed the relationship with the staff at the Davis location, but I remember hearing somewhere that it's a family franchise - the Davis one is run by relatives of the owners of the Northampton one.

Some casual google searching indicates that there may be a third in New Hampshire.

There is also a restaurant called the Taipei-Tokyo Cafe in Rockville, MD, but I believe it to be unrelated to the Massachusetts ones.