Before truffles were implemented, I had hoped they would be similar to hives/mistletoe, and associated with various trees. You could "farm" them similar to real life methods, building truffieres. That would be way overpowered now based on their implementation, but other mushrooms could be updated to function this way, various mycorrhizal mushrooms associated with their particular trees.
But, I do still think using logs to cultivates batches of certain mushrooms is a great idea that fits the theme of the game. I do have a wilderness friend who does this method irl. Just takes bits of wood plugs that have mycelium grown on them, drills a small hole in the log to be innoculated, and hammers them in. I'd cite older posts with more detail but posting from a phone is terrible.