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(In reply to Michael Thayer from comment #15)
> Pointed to this bug by Jonas Ådahl on the GNOME Shell mailing list.
>
> We seem to see something similar when starting VirtualBox. In VirtualBox we
> need for various reasons to know what the usable area of each screen is -
> that translates as the largest rectangle which fits on that screen without
> obscuring any panels or similar. We find that out by mapping a maximised
> window on each screen at start-up and checking its position and dimensions.
> To prevent disturbance to the user we create the window fully translucent,
> or if the X server does not support that we use XShape and leave only a
> single pixel visible. On GNOME Shell Wayland edition (what is the right way
> to say that?) this unfortunately flashes a black rectangle up on the screen
> in the area which should be translucent.
XShape might be a different issue than this one (I suspect this is related to ARGB here), but maybe you can provide a simple reproducer that does the same thing as Virtualbox?