It's alright to like those movies, Scorsese never said otherwise. But there is something deeply unsettling about those movies, their immense success, the company behind it and the nearly complete lack of reflection around those movies. There is nothing wrong with escapism, it's human nature. But that people fail to understand these movies as quite problematique in regards to what is actually happening, how it's completely and in the most superficial way brought down to the smallest common denominator and most of all, as Scorsese hinted at, when he talked about theme parks (I mean it's Disney, come on), is more of an extended commercial for its own characters than an actual movie. The characters serve no other purpose but to be sold. If Iron Man is on the screen, there is nothing happening with this figure, other than an image being sold.
These movies are basically no more than extended commercials, that are really well done. And if I understood Scorsese correctly, he thinks the same. And in his opinion, that's not what cinema should be about. Nobody has to share this opinion, but it's as valid as it is subjective. To get mad about such a statement, feels really odd to me. If you enjoy it, I don't know why you would be bothered as much by such a statement. It's just someones opinion.