I make pretty much nothing but scrappies now. Some are controlled, most are not controlled as to color but as to value (relative lightness of darkness of a fabric.) Here's an example that's on my design wall now. The only limitation on the actual colors was what I had available (quite a few repeats). I made these blocks as a lesson in the importance of value instead of color in a scrappy. This layout happens to be from a book by Lynn Roddy Brown "Simple Strategies for Scrap Quilts" but Bonnie Hunter has the same layout in a design called Patches and Pinwheels. Lynn's book has a great lesson on understanding value. In arranging the blocks, I did try to distribute the ones with reds and yellows throughout the quilt to spread around those little bright colors.
As for sorting and storage...I go by size rather than color or value. When I want to make something I then sort for either color or value. Try that....ignore the color and focus on the value then pick a pattern that plays up the lights vs darks.