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Losing It: When Unity3D Is Unable To Find Its Objects in the Build Anymore

When preparing my game for Fantoche, I ran into problems several times, since upon building my game, the screen either remained black or parts of my game did not work, with the log showing a NullReferenceException.

In both times, it was related to me tagging objects in the Unity 3D editor. This is caused by the somewhat peculiar implementation of tagging in Unity which only allows one tag to be added to an object.