These were the pages where I started to experiment more with the coloring. The thing is, the file structure didn't change all that much, i just painted over top of everything.
In clip studio I pretty heavily utilize reference layers, and I think you can set up reference layers in photoshop, but I haven't been using that as much because Clip Studio just has way more intuitive layer management. You can see in page 6.09 that I used a bunch of photoshop filters on the blue background behind Toivo, though, because i completely changed the color and didn't want to have to edit it by hand.