It kind of is a personal preference. one person's way might not work for another. Personally I have my pps sorted by themes,(vintage/shabby chic, seasonal with any holidays associated with them, and neutrals) stored in stacking drawers from Walmart.
But I know other people like sorting by brand and then by collection within each brand, some store them in cropper hoppers. I've seen others sorted by color. So there are really a lot of different ways you could do it. I just did trial and error to find the way that works best for me.