I have a 2004 H306, and I've had the rubrail off all the way 'round in 2020 (aft part) and 2022 (fwd part). We have exactly the same rubrail, so first of all, let me comment on what it is. See
Rub Rail Adventure . I think these rubrails have some positive points, and some negative. On the one hand, they're very solid, and do a good job of protecting the hull from pilings and docking misadventures. But to say they were "designed" to do anything other than this is an overstatement. They were "designed" to be easy to install, and to protect the hull/deck joint, but the actual implementation is pretty lacking. The rail looks like a capital G in cross-section, but with a hook on both ends of the curved part. This sort of "snaps" over the hull/deck joint, and then large stainless screws are driven through the rubrail and (hopefully, most of the time) actually into the 4200 or 5200 compound sealing the joint. This ends up rather compromising the joint, especially if you ever actually use the rubrail by ... you know... running into anything, even mildly. This causes leaks in the joint as the large screws are driven further into the joint. Or that's my theory.
Anyway, this large G-cross-section heavy vinyl rubrail has lots of space inside the G after it has fit over the joint. This space gathers crud (dirt, bird poo, more crud) that seeps into the space between the hull and the top of the G. It sits in there and festers. I've considered caulking the top seam (between the top of the rubrail and the hull / toe rail), but I suspect it would just look like crap, and would probably come loose rather soon. There's no way I'd caulk the bottom of the rubrail, as this is where water gets out after it invariably seeps in there.
You could pull them off, but I won't kid you: it's a rather big job. I only did it to try to fix leaks into the cabin. I think the leaks are better after I pulled the rail off and caulked, but it's still not perfect. If I were you, I'd probably just clean under the rubrail every now and then with a scrub brush and some soap and water. If you don't have water leaks from the rail into the cabin, just cleaning it is _way_ easier than taking the rail off and cleaning out the crud, which will come back, in any case.