That's fair price for the dealer to do it, most assuredly somewhere else would be cheaper.
When I bought my truck (dealer), I got it home in January and it wouldn't start. Took it back, they found one of the pistons in the pump was bad, and they replaced it (said it was $1400 IIRC). The tech said it was good I bought it in winter because in warmer temps it would have started just fine since the oil flows easier in warm temps.
Best idea is to ask here for a reputable shop in yer area and see what they'd do it for. But certainly offer the dealer that much less and then either have them do it, or go elsewhere.
When they put my new one in, I took the truck from Michigan to Maine on a camping trip, and one of the orings failed (it was a faulty oring from the start - they found when replacing it) out on the road. It was easy to find a Ford dealer that would take care of it for me, as opposed to getting the shop back home to come to Maine.
If I were you, I'd just tell Ford to fix it and pay the original price for peace of mind.
Whatever you decide, best of luck.