I'm being offered the fully integrated option and the partially (normal) integrated option. Does that mean there's any difference between the frames? Or just the type of bundle they offer (i.e. aero handlebars etc.)? If there's actually no difference between the frames, I'd go for the cheaper option and source my own bar, stem and so on.
I had the same choice for my CFR707. The semi-internal option has ports in the frame to run the cables through, and those won't be present on the fully integrated option. The semi-internal one will also come with a solid headset cap while the integrated one will have holes for the cable routing.
It would be possible to switch a semi-internal frame to fully integrated by plugging the frame holes and swapping the headset parts. They should be able to quote you frame-only for either option so you can decide if it makes more sense to chose your own bars.
I went with the semi-internal option on my CFR707 so that I can experiment with my fit more easily. I like the looks of the integrated routing, but I'm not will to give up the ease of assembly and maintenance for that just yet.