Using the clean up feature on bags once you’ve converted into a single bag creates odd gaps and lines of items across all the bags as if they are in separate bags still.
https://imgur.com/a/wOTUD7B
try this one
/run C_Container.SetSortBagsRightToLeft(true)
One problem seems to be that the Right to Left sorting, much as I love it, doesn’t respect the new reagent bag slot. It just sorts crafting stuff back into your main bags when you have it on.
Not a big deal for now, but might become more of an issue in DF proper when bag space is more “balanced” around use of the reagent bag.