Fascinating thread. I've something I'd like to throw into the discussion.
I don't doubt the practical uses and even benefits of clothing; however, it can have deleterious effects, too. For example, I used to burn pretty badly; a bit of decent-strength sun and I'd rapidly go red. Since spending time outdoors nude, though, that's much less of a problem, as my skin's adjusted. The point is, we have a natural, frankly remarkable covering, and smothering it in fabric can negatively impact it. It's very similar to how, as mentioned earlier in the thread, bras can impede the development of the muscles that support the breasts. Clothing may be practical and useful, but we're simply not designed to wear it, certainly not constantly.
Another facet is clothing can cut you off. In tangible terms, an example would be how much more connected you feel to the natural world when you're nude, when you can feel the sun and wind and rain over all of you. Believe me, it's an invigorating, eye-opening experience, reminding you just how powerful a sense touch truly is. In less tangible terms, it can be an emotional barrier, in a multitude of ways, which can be a good or bad thing.
Of course, as has been stressed repeatedly, individual needs and preferences matter most, and I think the Trek I've seen has actually done a pretty decent job of acknowledging that, especially when you consider that for most of its existence it's had to work within network TV guidelines, restrictive and, bluntly, contradictory things. The era of streaming and digital we're now in, with far fewer restrictions, will hopefully allow for much more variety and exploration, but it'll likely take a while; old habits die hard, especially in corporate TV.