Even if I like his movies for the most part. I have to be more criticizing than you : The Bourne trilogy is good but not amazing. In fact I believe only the first one deserve to be mentioned.
Other are just made to surf the success wave, and you can tell it just by the pitch : a new drawer within the previous drawer contain a new deep state. I kind of dislike these kind of easy stories we find all the time in tv show and sequel movies "hey the bad guy is not the end boss, there is a guy above it, and another one and another one".
Will hunting is good yes, but I'll give it another critic : as one of the best known drama about studies, and successful student story, it doesn't show enough that even for this genius it is not easy to learn. All the movie is showing him hanging around, and say "oh I read the whole library for just few box of penalty". Okay, sounds simple that way.
So the problem is : audience don't get to understand that reading a whole library is, if not hard for a genius, at least very long.
And so this film made people think that if you are an high IQ, things will be easy.
And it is not, in fact most of gifted students give up once they have to start working.
Because their whole youth was nothing but the school of laziness "hey I don't have to work, I always got A grade".
And in our society (and I saw it a lot among mensa members), there is a tremendous amount of wasted talents because of that. And that's a shame.
And this movie is not helping at all. In fact, it is so well known that I believe it is part of the problem.
So because of that, even if the movie is good I can't list it as my favorite list.