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Why was what was "in the heart" so much more important than what was "in the head" for a position that pretty much defines Badass Bookworm? Because the previous Badass Bookworm turned evil.
Not really. They thought the previous Librarian was dead, not evil.
Regardless though, his betrayal still demonstrates the concept. They are probably more than aware of how badly giving a person with as much raw potential as a possible Librarian the access to the power in the Library without a working moral compass could end.
What was the point of having a pyramid in the first movie?
To mock the audiance by introducing the protagonist as some sort of adventurer or action archeologist, then push all buttons to show he is a dork. That, and as a plot point in the second half.