That’s not a bad idea, if I still have a fitment issue I will see about going that route. Thanks for the suggestion.I wouldn't worry about mud caking. I've been through the worst of the worst with mine and have never had an issue. They stay put really well.
As for the seam. Would you be open to putting maybe some black vinyl over it? Could look similar to the profile of the stock flap, but cover the seam, offer protection, and allow you to scrap the stocks to make more space for the ASAPs.