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Why do people call Mr. Bonding a pervert/inappropriate/etc.? Is it because you sometimes meet him in a hotel room? You people have sick minds. This is a KID'S game. What's more, you don't even find him in a hotel room EVERY time you encounter him. Sometimes you see him in the Pokemon Center too, and when you get the final O-Power, you meet him in a cafe in Lumiose City.
Now if you ALWAYS had to meet him in a hotel room, it would be weird. But because you don't, it's not that awkward.
But to actually answer the topic question, I always thought he was simply a person with mystic powers. We've seen such people in Pokemon before, like the psychics and Sabrina at the Saffron gym.
