Even though i3 cannot know the width/height of some workspaces as long as they are not initialized (say you used workspace 1 and 3, but not workspace 2), some applications require this information. In this case, it was Firefox which intersects the available workareas (see mozilla/gfx/src/gtk/nsScreenGtk.cpp) and did not position some windows correctly when being confronted with zero-width/height workspaces.
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