After looking at tonneau cover options for the past two months, I decided on the Bakflip G2. It is the low profile hard folding type like many others, but has some very nice features. I would highly recommend giving this one a look if you are in the market for yours. I purchased mine from...
I installed the engine cover on mine as well and left off the top right stud to allow it to sit flush. I plan to order Ford Part No. AA5Z6N958A from here. I believe this is the correct Engine Cover Stud for this location.