My vote is for the 07 mostly because its the dual spark model. The dual spark motor is much smoother, a bit more power, and better fuel mileage, but best of all, doesn't suffer from the surging some of the early models were known for.
Plus, I tend to really stay away from bikes that have sat for awhile. There almost always turns out to be other issues you didn't anticipate.
That's not a bad price for the 07 either and super low mileage. My wife has an 06 F650GS with about 30k on it and I really enjoy riding it myself. Its a great bike.
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Mine: 09 DL650, 08 WR250R, 01 FZ1,
Hers: 07 Ninja 650R, 13 CRF250L,
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