You mention a bunch of my favourites. I really like Journey. Such an amazing mix of visual art, music, and pacing that is really moving. I came to it quite a while after all the hype around launch, but it still totally lived up to all the praise it gets. Although I have to say it does depend a lot on finding another person to share your journey with. I've played it three times through now, and one time was alone, and it was much more lonely and definitely took a lot away from the experience.
I really like Fez too, although I haven't played it since it first came out. It has such a cool atmosphere and feel to it, and a genuine sense of uncovering some kind of esoteric secret. I like it a lot, and the soundtrack is great.
Which brings me to Hyper Light Drifter, which is practically my favourite indie game. Soundtrack by the same guy (Disasterpeace), and it is his magnum opus. Might be the best soundscape I've heard in literally any piece of media. Amazing pixel art too, and a beautiful world to explore, with tight combat, and a really raw nerve running through the whole experience grappling with death and pondering on its meaning. An intensely personal work that is hard to really put in to words. It feels larger than the sum of its parts, even though each part is still really impressive. Still waiting on the physical edition of the Switch version...
Brothers: A Tale of Two Sons is another favourite that I think is pretty important from a game design point of view, that I think deserves more attention. It does a fantastic job of linking gameplay design to the story in an integral way, on a more fundamental level than almost any other game. The more you think about it, the more you see how each aspect is linked. It turns muscle memory in to character development. Also it's another game with a great mood and tone to it. With a kind of eerie, dark fairytale feel inspired by Scandinavian folklore.
But of course I can't end this without mentioning Shadow of the Colossus, and the works of Fumito Ueda in general. The games that inspired a lot of these "art-house" games in the first place, and which still stand up as being among the best. The bleak beauty of SotC, the stunning soundtrack, the minimalist focus, and the way it turns normal game narrative dynamics on their head, especially back when basically no one had done that, still makes it stand out as one of the best things games have produced. Not that this is news to anyone.
Honourable mentions: Bastion, RiME, AER, El Shaddai, Eastshade, and maybe the Nier games sort of count at a stretch. Also I want to try out GRIS but haven't got around to it yet.