Cozy writing and untangling a ball of string

My Stash Box* is crammed full of cheeze its, my instrumental CD is in the player, and my notes and paper and such are spread around me just so. And I've been writing. Slowly, but any progress is good right now. The chapter summaries are coming along pretty well, I think. They just take a lot of time and thinking and scribbling/rewriting. In case I didn't mention it previously (though I think I did?) the point of this is to help me get my material organized (and as a side benefit will help me figure out how many chapters I'll have so I have a real answer whenever people ask me that. Why do people always ask that anyway?).
I love to organize, so this part should be fun, right? Ha! Ok maybe I should specify: I love organizing THINGS. Not necessarily information. What's the difference, you ask? Well, when organizing things, you can organize alphabetically, by color, by size, by shape, etc... endless possibilities of physical attributes which make it easy to decide how to organize things in order to make them aesthetically pleasing or easy-to-find.
So why should it be any different for organizing information? Don't I just want to make it easy to find? Well maybe... but there's this little thing called logical order that keeps getting in my way. You see, sometimes when writing you have to build stuff "precept upon precept", kind of like building a building. Or if you were describing something in a room you would use spatial order (i.e. describe what's closest to you first). But my content is so intertwined sometimes it's hard to decide what should go where. Sometimes I just need to briefly mention something then explain it later.
I think I may have complained about explained this before, using a slightly different word picture. But this time I'm likening it to untying knots. BTW, untying physical knots happens to be a bit of a specialty of mine and I often like to untie logical knots. But this seems to be in a class of its own. Or maybe I am just making this harder for myself than it really is. I have a bad habit of doing this, too. Hmmmm. I think maybe I just need more cheese-its :D

(*my "stash box" is a special little box [location: classified] in which I keep little muchies/goodies [like chocolate!] that I want need to keep hidden from the vulturous male population of the household. Not to mention from mum who is also a muncher. Now you know where I get it!)