How small indie do you mean, like one person teams or teams of 5 ok?

• Dyson sphere project, is a great factory game in development for ages and one of my favourites by a 5 person Chinese team.
• Rift breaker by a small Polish group is like a cross between Diablo and Tower defence factory builder lite
• Criticality, is a fun incremental game that will keep you occupied for a few days, hit neutrons to create a chain reaction, basically bubble wrap
• “Lost wiki Kozlovka”, is a very unique find the clue by reading Wikipedia articles in early 90’s internet only about 2 hours long, highly recommended.
• Take a look at the “secret of weapstone demo”, DnD in hand drawn black and white
• Alan’s automation workshop, is good before it gets too hard it you like programming challenges, try the demo first
• Silicon dreams, is like a physiological interrogation, you are trying to determine if the people are human or malfunctioning Androids, again there is a demo
• Horripilant, is an interesting auto batteler, again with demo
• Terraformental, is an incremental text adventure where you build skills to survive a time loop
• A dark forest, was entertaining, currently free demo
• Cleared hot, it’s basically desert strike helicopter gunship game
• Tower wizard, fun for a few hours
• Little rocket lab, like factorio but you take over a town and it’s cute
  Kids recommend “look outside,” and “mouthwashing”, lobotomy corporation, lethal company,
• The signal state, another programming type game
  My youngest recommends "rainworld’ like a 2d dark souls
  That’s my list from the last couple of months. I tend to search demos by genre and wish list things that get my attention. No idea how any of them works under Linux

EDIT: had to fix up the formatting on mobile.
Edit 2: went through my review and added:

• “Town to city” like cities skyline but fun and cute
• IXION, nice little confined space city building game
• The crust, heaps of potential but waiting for them to finish it
• Shapez and Shapez 2, fun little puzzle factory games.
• Sandustry is more fun than it has any reason to e
• cataclismo
• space rock breaker, a cross between pachinco and asteroids

older games,

• TIS-100, like assembler but more limited
• papers please, love this one, love the aesthetic. If you don’t want to play it watch the live action video homage ~10 minutes

I’ve ignored VR games, let me know if you want those too.