Y-Sorting seems to work for me with TileMapLayer Scene Collections. My map scene tree looks something like this:
- Map
- Camera2D
- Objects (Node2D with Y-Sort enabled)
- TileMapLayer (with Y-Sort enabled)
- Other Nodes
When the game is run, the scene collection tiles get spawned as children of the TileMapLayer with random fun Godot names (@Node2D@37). I didn’t do thorough testing though.