I have my scraps organized by color in clear totes.
The guild has a 6 1/2" square exchange where members can exchange 6 1/2" squares with each other. I haven't participated in a few years because I have lots of 6 1/2" squares.
I keep these in totes, as well. As you can see they aren't color coordinated, but over the years I have used them in many projects, so they have been tossed around and they aren't very well organized. Tonight I started ironing them, and gave up when I realized there were none that would make a matched set. I can't decide whether or not to organize them by color and/or theme, or if I should add them to the other totes according to color.
It's something to think about. I will let you know what I decide.
Maybe one day I can have a scrap user's system like Bonnie Hunter's system here.
How do you organize your scraps?
Have a great day!