There are 3 shapes, not 6 fabrics. Large and small squares, and rectangles. Each of the 3 are cut from light and dark fabrics--that is why there are 6 cutting steps. Follow the photo with one light and one dark fabric.
I can see how having the steps listed as "Print 1", "Print 2", etc. could be confusing. This appears to be the way most of the patterns will be written.
Just use the photo if you want an exact copy of the quilt, and/or if you are using the Kit. If you are using your own fabric, feel free to mix things up as much as you choose.