I have an aux tank in my bed that sits about an inch below the bedrails. Then I went looking for a tonneau cover. The problem I kept running into was that many brands had components that hung down lower then an inch, even though the cover itself had adequate clearance. So I ended up going with a Truxedo soft cover roll-up. I like it much better then I thought I would. 3 years old now and looks and works great. Cannot be opened if your tailgate is locked (Yes, I know - a knife). $300 installed.
I hope you find what you want, but just in case . . . .