I keep it as simple as possible. My shelves are arranged by the spectrum method.
I don't bother to go from lights to darks because I can see that easy enough.
From left to right on my shelf I start with stacks: red, orange, yellow, green, blue, violet, red violet. Everything fits into this simple stack method.
I keep panels, baby, novelty and specials in seperate stacks.
fat quarters are in an under the bed tote (but not under the bed). It is shallow so fabric doesn't get piled up.
Scraps are in clear, labled shoe boxes in sizes. For me a scrap is anything smaller than a fat quarter.
Any projects that have fabric picked and ready to go are stored in small washbaskets that stack on top of each other and have a copy of the pattern with it.
I am fortunate to have enough shelves to make my method work and it is not really a lot of space to work in, just enough.
peace