I'm just a novice, but since none of the PAF experts have answered, I thought I'd throw in my two cents worth.
I started as you did with myself as number one.I like to track cousins and have added lots of collateral lines which is really increasing the size of my file.When my own file becomes unwieldly, I thought I'd create seperate files for my maternal and my paternal line.
A person could also create seperate files for each main surname.That's how I organize my computer files such as correspondence, census records, digitized vital records, photos, etc.
Those are just a couple of thoughts, but does anyone else have other solutions???I'd enjoy hearing other ideas on how to organize files, both PAF and computer files.