I've been in contact with Whole Foods about the incident. Although its not going as smoothly as I wished, I am still going to practice my coupon rights!
Here's some match ups with the new Whole Deal!
Back to Nature Mac and Cheese (only on sale until Tuesday?) 1.00, 12 in a case
Use 1.00 coupon from Whole Deal
Use 1.00 Back to Nature coupon found here
-1.00 each, or -1.10 each if you buy a case
Back to Nature Cookies 3.69 a box, 6 in a case
Use 1.00 coupon from Whole Deal
Use 1.00 Back to Nature coupon found here
1.69 a box, or 1.32 a box if you buy a case!
Back to Nature crackers 2.99. 6 in a case
Use 1.00 coupon from Whole Deal
Use 1.00 Back to Nature coupon found here
.99 a box, or .69 cents a box if you buy a case!
Back to Nature Juice boxes 5.99 (10 pouches per box) 4 in a case
Use 1.00 coupon from Whole Deal
Use 1.00 Back to Nature coupon found here
3.99, or 3.39 a box if you buy a case
Method Dish Soap 3.99, 6 in a case
Use 1.00 coupon from Whole Deal
Use 1.00 Method coupon found here
1.99, or 1.59 each if you buy a case
Organic Valley Soy Milk half gallon 3.69, 6 in a case (mine rung up 3.00 on sale, but it wasn't marked)
Use 1.00 coupon from Whole Deal
Use 1.00 coupon found here
1.69 each or 1.32 each if you buy a case (or .70 cents each if they are still on sale and you buy a case)
Other coupon matches, but I'm unsure of the price:
Bear Naked Cereal or Granola (coupon in WD, and one here)
Now get to Whole Foods and use those coupons!