The wall tile arrangement/orientation (on the export section - see under watercolor's comment) follows the same arrangement of the normal godot floor tiles.
But since they are wall tiles, they have to be extra tall to compensate for the wall height. This makes it visually harder to see the tiling effects, that's why I have a top view version on the bottom, which makes viewing/editing the tiling effect much easier.
Upon export, do your autotiling setup the same you do for your floor tiles and make sure to offset your tiles vertically and set your hitbox to the lower half correctly.
I was going to release a proper video on the usage of the wall template with the aseprite extension when it was done, but I think I should do the video on the wall template sooner than later to clear up confusion on its usage since the extension is going to take a while.