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1b1ed1a
(Get the code!)
When viewing a "flipped" board (i.e. viewed from the bottom), the layers are still ordered as if viewed from the top unless a bottom layer is selected. This is a problem when an inner layer contains a copper plane, as the components on the bottom are not visible when working with another inner layer.
For example, create a 4-layer board with a plane on one of the inner layers. Place components on both top and bottom, then flip the board in the View menu. Unless a bottom layer is selected the components on the bottom are invisible even though they are on the side being viewed, while components on the top are still visible through the plane. Selecting the bottom copper layer causes the bottom component to be visible but disappears again if another layer is selected, such as when a via to another layer is placed.
Another example of this without requiring filled inner layers is that top pads overlay bottom pads if a neutral layer like Edge.Cuts is selected.
While this can be worked around by displaying planes in outline mode or making them somewhat transparent, it makes more sense for the layers to be stacked in reverse order when viewing a flipped board.