Its very much dependent on why you are going to Japan. Without going too off topic, Japan is like any other country where foreigners have ease of access vs some struggle to get around.
Major tourist spots like Kyoto. Osaka, Tokyo, Nagoya, Okinawa etc are way more westerner friendly than places like Sapporo, Kobe, Fukuoka. Biggest advice is first and foremost, if you plan to travel buy the JP rail pass online and have it mailed to you because its way cheaper overall and saves so much money. If you flying into Tokyo, try to fly into Haneda instead of Narita, its actually in the city, saves you time getting into the city area of Tokyo, saves you money, and shorter lines at immigration/customs. Know the difference between a Ryokan and Hotel before you book your places to stay.
Going back to Nintendo which is located in Kyoto and actually really isn't exciting inside at all located an hour away from USJ and one of the statements made about gaming, one of the things they did with monster hunter and yokai watch was they had exclusive game spots where people could get USJ exclusive gear, creatures, etc.
If anything I would expect them to continue that as the interactive measures to increase the level of merch sales within the parks.