If I lived in a small cage I think I would want my toilet area to be as small as possible! It is also a lot more hygienic to keep it separated from the rest of the living space.
I would guess that the reason we have evolved to dislike the smell of our own waste products is so that we stay away from them and avoid sickness and infections.
Just like humans, animals don’t actually want their waste products where they sleep! So they learn to keep it in a corner (or several corners) or buried away so they’re not at risk of infection or disease!
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