A lot depends on the pack you use. Some packs have a lot of pockets, other have little to none like my Stone Glacier. I bought a set of Kifaru pullouts (1 of each size) and then a couple cuben fiber pouches from Moutain Laurel Designs in each size. I also have the large Kifaru compression sack.
I can fit my tipi tarp (with stakes, etc), bivy, sleeping bag, and sleeping pad all into the Kifaru compression sack. Its nice having camp all rolled up in one spot.
I use the XL pullout for my extra clothes. I can fit my puffy layer, rain gear, gloves, extra socks, base layer all in there and it makes a good pillow.
My killkit stuffs nicely into the medium pullout (basically the rokslide kill kit)
The smallest pullout is for essentials like toothbrush, toothpaste, meds, etc.
I use the MLD cuben fiber pouches for my other gear, particularly stuff that can't get wet. My electronics go in one pouch, my camera another, one for tools/calls/etc, and my first aid kit in another. I have them labeled, and keeps them organized pretty well if you just throw them into a pack like that. However, if you want to take it a step further you can also throw all these into a medium or large pullout before throwing them in your pack. I usually keep them separate, and put my camera and electronics pouch in my pack lid for easiest access.
These are the MLD pouches:
http://www.mountainlaureldesigns.com/shop/product_info.php?products_id=210
Last I have a Zpacks medium rolltop cuben fiber stuff sack that I use for my food, and a Stone Glacier roll top bag that I pack empty for use in packing out an animal on the load shelf.