I've also seen it used in Tumblr posts which were written with absolutely no harmful intent. It's imaginable that the author of that page had used the word in a not-mean way before in their lives, and
especially likely that dripping sarcasm doesn't come through in text.
As for the actual article, I guess it goes to show that this "kid genius" media stuff is always self-interested on the part of the institutions and rarely if ever benefits any kids.