Holy smokes, that's expensive! I would do some more research on the non-custom kibble. I think you could find a brand that addresses the issues you're concerned with. I did a TON of research and settled on a brand that's costs a bit more than we wanted to spend, but Jack is doing great on it so far!
While the "idea" that you're creating your dog's pet food is appealing, I'm afraid that this is just a gimmick that gets people to spend more on a product that they could find equivalently in another brand for less $.
I think you might have better luck discussing food with your breeder and doing some research on foods that are already out there with a proven track record. (for less $)