I purchased an all-in-one fob from ebay for my 2009 GT and it worked just fine. I believe I used the Ford process for matching a new key to the car. Its been a while, but I believe the car only allows 2 fobs to be matched, so my spare OEM set no longer works. The biggest issue I had was getting the blank cut on the new fob. None of the dealers would touch it (called it an ebay knock-off).
2009 GT Premium Black on Black 5MT