I don't think there is a setting that will prevent it. We use the drag & drop method as well and always make sure users pay attention to the arrow shown. If the hidden item(s) shouldn't be on the planogram, perhaps you could view a positions table to see if items are on there that shouldn't be. Depending on the number and size of your planograms, this would take a while and might not be worth the time.
Depending on the depth of your products and the depth of your fixtures, you might notice some warnings too if the position is outside of the merchandiseable space.