No matter what rail fastening sytem you go with, test fit the top prior to drilling. I think it would be wise to include all the various seals in a mock up. The whole shabang...Packing, stake pocket seals, tub lip weatherstrip, lid weatherstrip Would suck to drill rail holes only to later find those holes were slightly off, causing a mis-alignment issue between lid and upper hard side holes. I know it sounds goofy and like overkill. It’s amazing how tight the tolerences become once you throw everything into the mix. Heck, it wouldn’t even hurt to have the front doors weatherstripped and ready for top mockup day.
Heads up on the stake pockets. I found my freshly painted tub had too much paint buildup in the stake pockets. The stakes themselves were also painted. I had to sand inside the pockets and sand paint off the stakes. I needed wiggle room to bolt the top together. Food for thought.