Hi Dave,
I currently make the harnesses for the Ecoboost powered cars and did look into the V6 mondeo harnesses briefly, the main issue I had was a lack on information on the Ford harness, especially on the CAN bus side of things as the Mondeo uses quite a bit of CAN stuff.
I'd suggest that if you started with a Mondeo harness and then modified it to suit it would be possible, this will be even more important for yourself as you want an auto hence there'll be extra ECUs etc..
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