Glad you revived this sort of thing. Anything to connect the gap between the EVN and JVN crowd I think is a good thing. I don't have too much to add, but here are some I quite like that I haven't seen mentioned here yet:
Juniper's Knot: A short, well written story that nearly a decade later still leaves quite a good impression. Focused on the interactions between a lost boy and a demon confined within a magic circle, it has some folklore-ish vibes to it. However, the bouncing between the two perspectives of the boy and the demon girl adds a modern flare to a story that otherwise does feel like it could be within a Grimm Fairy Tales book. This is all not to mention the beautiful art. For more info here's a review.
Digital: A Love Story : "It's not what you say, it's how you say it that matters", is the first thing that comes to mind with this VN. The story itself is quite simple, but the presentation is so excellent that it makes up for where the story might slack. Especially as somebody who is quite fascinated with old computers, I loved how the whole story is told through BBS messages. BBS standing for Bulletin Board System, and was essentially the internet before the internet. Its presentation mimics said environment very convincingly as well.
The Dandelion Girl: Another entry in that short and sweet department. Although often overshadowed by it's more successful sibling (the other 4chan visual novel, Katawa Shoujo), I think its charm shines through. And that's really the appeal I find with this VN. It's nothing amazing, but has a soulful charm to it.
I guess I'm just preserving the classics with this post, but I'm sure if @Plk_Lesiak sees this, he will have some more up to date VNs to mention.
Btw, glad to see that mine got a mentioned. Even if it's just to be polite.