In the below sentence,
The mission of the entity may include goals other than maximizing profit.
is it implied that "maximizing profit" is a goal of the entity OR is it referring to only non-profit-maximizing goals?
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The sentence suggests that "maximizing profit" is expected to be a goal of the entity, but it does not imply that it actually will be a goal of the entity.
As you suggested, a non-profit organization will not have "maximizing profit" as a goal, though many will aim to raise as much money as they can to further their other aims. And of course an entity might exist only to distribute money provided by a different entity.