That's not going to happen and you know it. There is no way fedgov is going to let you shoot the last bald eagle in existance just because it lives in your barn and even if they would the State, which can Constitutionally sieze your land under emminent domain most certainly won't.
Let them certify it and if they won't then they should either let you clear it or compensate you for it. No swiping land or declaring it off limits without just compansation.
You must have read the Constitution. Now if only our "leaders" would do the same... ;)