there is a config for this, but raised should probably do this automatically as why would you not want them to line up?

edit: I had to manually add 2 pixels up to applieskin saturation bar, but this worked:

yeah thats what i did as a temporary fix, it should be done automatically though

This is intended behavior for 5.x based on the way that Appleskin adds its GUI on (Neo)Forge. Mods that register their (Neo)Forge layers instead of just rendering them on a render event now get individual Raised layer entries created for them automatically for you to configure. Since there is no way of knowing where the layer is to be placed on the screen by Raised, the entry is given the most neutral values.

Prior to 5.x, Appleskin was just being lumped in with the hotbar because of where it chose to register its layer next to in the stack, but that doesn't necessarily mean that it is intended to be in the same position as that vanilla layer. This was an issue brought up with other mods. Unfortunately, without redesigning Raised to use this registration system, there was no way for the user to individually configure Raised layers registered as (Neo)Forge layers, and that relative position within the stack was the only way to assume what it should be lumped in with.

I suggest syncing it to the hotbar instead of setting the displacement value if you wish to ever change the hotbar position.