Ken - if you're getting a custom bike, I'd say that you'd want to be rideable under all circumstances you're likely to face (including terrain, and your physical fitness) - rather than emphasizing the type of fork you want.

Go for with brakes - versatile under all conditions. What if you get injured a few years down the road? You may want to fit a brake, and you may want to still ride your custom bike that was made for you.