Object layer always imports with all objects at Sort in Layer 0, even if Sort in Layer is manually set

[nearlyNonexistent]

Using Unity 2019.3.14f1 Personal Using latest SuperTiled2Unity

Layer order:

I have one object on the Objects layer, replaced with a NPC prefab. The NPC always appears beneath every layer, except for sometimes their head. Tried manually setting object layer to Sort in Layer 3 but still nothing.

Am I misinterpreting how to do prefab replacements? Is it intended to need to set the Sort in Layer for each object to the one being used on Custom Sort Axis? My interpretation of the docs was that it makes the layer all have the same Sort in Layer instead of one number per object.