I think if your intention is to make a replicate, then your ideas would be a problem Lesley. If your intention is to make your "baby Jane" in your own way, then you are doing it PERFECTLY!! I think you can lay them out however you'd like and it will be fine!
As for what I'm doing...I printed out the blank DJ from the software. I then color in the square/tri I'm making with markers to reflect whether I'm using green/brown/red/orange as the predominant color for the block. One of these days I'll snap a photo and post it. Then when I go to work on a block, I pull out my chart, and look what's near the block I'm making to decide which fabric to use.