There was a recent thread discussing a somewhat similar way of working, and this was the best advice I could provide for keeping the writing process in Scrivener.
As everyone else noted in that thread, the writing process is not the book production process though, and some people may want to blend the two a bit more than Scrivener is designed to work. I’ve even heard of people who write in InDesign, which is surely torture, but for some highly stylistic forms of visual writing, may be essential to how they think of the narrative.