No sentence with "gonna" is natural.
Do you by any chance know how much my boss is going to increase my salary? - ok
Do you by any chance know how much my boss is going to raise my salary by? - ok
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In line with a comment above, "give me" is informal.
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You mix "gonna" which is informal in the extreme with the very formal "increase my salary".
While the expressions are natural enough, the mix of formal and infomral sounds strange.
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raise is both a noun and a verb.
I'd go more for
How much of a raise is my boss going to give me? (I had to shift "is" as well.)
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As aslo stated above, in many places only your boss and you discuss your salary, so the conversation is not exactly natural. :)