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Ok I started implementing that.
My idea would be to make it a menu entry in the layer menu and to use the current stamp.
That would mean this way of handling:
My idea would be to simply ignore the flipped state of the cells for the tileset right-click menu. We can have a different approach for the map, probably an additional tile selection tool that selects all cells that are the same as the clicked one. Similar to the Select by Color Tool in GIMP.