No, he was talking about the Golems, (Regirock, etc.). He probably said that Mew was the boss because of that movie, but now we know that Regigigas is the boss, not Mew. (although, thinking about it, the only time Lugia was ever seen to be the boss of the birds was in the second movie, so I don't think its game canon)
Don't mean to go off-topic but I think in the movie you're talking about "Lucario and the Mystery of Mew", Mew wasn't controlling the golems because then they wouldn't have attacked it and Ash + co. It was the 'living rock formation' that was controlling them.
~ ON-TOPIC: I stand by my previous thought on how Generation V is like Generation I and Generation III combined: a new original (?) concept taking place in a foreign region.