The White MC Keepall where you note "This bag is turning colors. I'm obviously not storing it correctly." The staining on the white canvas is not due to your storing method...it is a known defect (something with the glue used during the making of the bag) and LV will replace the flap for you.
Thank you so much!!! I will take it to LV next week. I kept trying to figure out what I was doing wrong. Tried storing it in and out of the dust cover, etc.