This is probably some of the best advice here. Keep the drives (if possible, if not partitions) each OS is on separate from the other. Have a 3rd drive (or partition) as the bulk of your storage that both can see and use.

I'd also suggest reversing your plan of mainly using windows and hopping to linix when you want to and make it Linux default and windows when you have to. You'll learn more immersing yourself in Linux that way, and you'll find whatever issues or software that force you back to windows (if any). The other way around you'll feel that Linux doesn't do anything you need it to and likely spend very little time in it at all. Habits are hard to change.