I too agree that you should put the seam sealer in. I just did it (had it done in my case). Not sure why you @tacoma2002 are concerned about this. It smooths out nicely if you use the right stuff, and it keeps the rust prone, pain in the ass to replace, gutter from doing just that. And it keeps most water from getting into the cabin interior, and helps to keep water out of the internal walls of same so that you don't get long term hidden rust issues.
I haven't followed what you are doing to your vehicle, but in my case, I'm spending the extra $40 and the couple hours of labor for the sealer (again, I paid for both, not actual time on my part). I did replace the rain gutter myself, including the welding and prep of it. But my top needed a whole lot of fiberglass work after that. They basically rebuilt me a custom top using the existing fiberglass as an internal frame.
View attachment 3115708