The Riddle That Seems Impossible Even If You Know the Answer
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I assumed that the boxes are numbered simply for viewers' convenience and NOT because they are actually numbered in the room when prisoners go in.
The ruleset confirmed this as it had no mention of the boxes themselves being numbered.
I think of it as a flaw since any form of information could've otherwise not been used to execute a standardized procedure of any sort, prior to going inside the room.
And since prisoners cannot relay information by changing any aspect of the room or its constituents, this makes the problem seemingly impossible to solve.
With the introduction of numbered boxes, however, things get more complicated and new functions start to emerge, which could then be played with to entertain the possibility of a better solution.