The Atlas Maker works by selecting a sprite and it appears as "Add" or "Update" in the atlas maker.
But it also works when selecting a scene... so if we have an Atlas Maker window opened and click on a scene, well it scans everything in the scene and if you have a large scene it can take some time... maybe there's a way to prevent this ? Like ignore things if they're something different than textures, or at least a scene.