Hmmmm, sure. I'm not sure if I'd label them "obscure", they've all got a couple 1000 reviews on Steam. But they're certainly not mainstream to the level of my previously listed games(, with Disco Elysium not really being mainstream either tbh, but people know of it to some degree).
In no particular order and in no way an exhaustive list:
Lies of P.
Baba Is You.
Ender Lilies/Magnolia.
Rain World.
Pillars of Eternity 1/2.
Return of the Obra Dinn.
What Remains of Edith Finch.
the "We Were Here" series.
1000xResist (played this one just a month ago, what a game).
If you liked Obra Dinn you should try out 'The Roottrees are Dead'. Very similar 'fill in the gaps via investigation' core gameplay loop, but I found it more engaging/less repetitive.