It is to emphasize the word "fuck." It comes from the shorter version of "give a fuck" and then "give a flying fuck." It means "I don't care" but with emphasis. So it is an emphatic "I don't care!" Or also, emphatic "I could care less."
"I don't give a flying dog fuck if you want to go to the beach, we are NOT going!"
"I don't give a flying dog fuck if you like driving, I am doing the driving!"
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