You claim “ There's a large class of space flight problems you can't giant rocket your way out of.”
…but every single one of your examples is wrong and proves the point that large rocket DOES solve it.
For example:
> The closest they come to closed-loop anything is 93% re-use of water; a Mars mission (by NASA estimates) would need 99%+.
Oh, really? Why precisely do you think NASA estimated 99%+ water recycling would be required? Because MASS.
>trace volatiles
In fact, ISS has had trace volatiles measured in real-time for years: https://ntrs.nasa.gov/citations/20070030106
ISS sends samples back to validate the instrument because ISS is a testbed. It isn’t absolutely required.
> there's no food that stays edible for five years
Wrong. Anything will stay edible for 5 years if put in a deep freezer. And canned food lasts a LOT longer than that. “Oh, it’s not as yummy and the nutrient profile changes”, well sure. It’s nice to have fresh food. But the claim no food stays edible for 5 years is trivially false. All of us have eaten food that old, and the radiation environment isn’t enough to change that equation massively.
ISS can withstand long periods without resupply, and has done so when there has been launch failures. If you can prepare for it ahead of time, it’s just a matter of having a sufficient spare pool on-orbit instead of just having the spare pool on Earth. In other words, MASS.
Waste management is annoying if you don’t have canisters to place the waste in, but again, that’s also just MASS. You can put the waste in double sealed containers and then just place it outside the airlock. Can do that on orbit, so that’s actually one advantage Mars has over ISS.
And I don’t see why Mars can’t have a full time ground crew, too. Time delay annoying but not in any way a showstopper.
In fact, a large rocket solves these problems so completely, people who should know better still haven’t wrapped their heads around just how completely it changes the situation. The water recycling thing you repeated is illustrative of this. It literally is just mass.