Can you explain to me when it is more appropriate to use it or one in the following sentence?
One/it should warn about the conflicts.
I don't think there's a big deal using one or another because the meaning will be exactly the same.
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The meaning is not exactly the same. One used as a pronoun indicates an unspecified single person, whereas it indicates a specific object or collective.
It's hard to tell exactly what the context is here with such a short quote, but
means that someone should warn others about the conflicts.
means that a device or software program, or perhaps office or organization, which was previously being discussed, should warn about the conflicts.
"One" should be used exclusively to refer to people (or people-like things - pets, etc). "It" should never be used to refer to people.
Caveat: "One" can refer to non-people-like things in cases like, "One should warn about conflicts and the other should do something else".