Color-Coded Allergen Program

I'm trying to implement a color-coded program for storing product with allergens. Some products have multiple allergens, how would you go about setting up these products in your color-coded allergen program?

Multiple stickers on the box/pallet/pallet code. 

Multiple stickers on the box/pallet/pallet code. 

How would you store them? Product with multiple stickers on the bottom and single like allergen product on the top shelf?

How would you store them? Product with multiple stickers on the bottom and single like allergen product on the top shelf?

 Only on top if the bottom contains the same allergen(s)

What if you have an product with a precautionary allergen statement (e.g may contain gluten(wheat)) and another product which contain wheat as an ingredient, can you store them on the same shelve.

When working in a small storage area we implanted a daily warehouse/storage review. All of the allergens were stored in the same location however all products was double packed. This walk through insured that there were no spills, broke/open packages or dust that could possibly be a contamination. We had USDA/FDA approve of this process as long as Non-allergens were stored under allergen products.