I normally use a Gossamer Gear Torso pad in my CDT. And like others use a trash compactor bag as a pack liner where I loosely store my down quilt and jacket on the bottom of the pack. I pack everything else in above it. I have a couple of cuben fiber stuff sacks from z-packs (weight almost nothing) that I store small stuff so I can always find it and it makes it easy to pack up since I only have to throw in a few stuff sacks instead of alot of loose gear; I never have to pull everything out of my pack to search for something. With frameless packs like the CDT, you want to eliminate empty space so that the pack becomes as rigid as possible so practice arranging your gear as you pack to do so.
For me, the limitation on this pack isn't the size, with my gear I could fit at least 10 days of food if I wanted, rather its how it handles the weight load (which is why I don't want to carry 10days of food in it). How well you pack it, determines how well it carries the weight. If you find it uncomfortable, try repacking it differently. Eventually you should find a way that your shoulders will enjoy more. When I first started using this pack (first frameless pack), my shoulders hurt a lot by the end of the day. But after a lot experimenting in how I pack it, they rarely bother me at all anymore, mainly only when I'm carrying the high 20's pounds, and even then I only notice it late in the day and it isn't that bad.