>I thought we had agreed that entropy is something you calculate with a model,
We did agree. I never said otherwise. Where are you getting this idea? I'm saying our agreement on this fact is useless. Why don't you actually fully read what I wrote.
>I was trying to say that the inputs to S(...) are the things that we know because we did measure them or set their values. It seems that we agree on that because it's extremely obvious.
I spent paragraphs remarking on this ALREADY. I get what your saying. You're not even reading what I wrote. Every mathematical model has this property you describe. It is not unique to entropy. If you don't know the parameters of even the Pythagorean theorem, then you can't calculate the length of the hypotenuse. Does this mean the pythagorean theorem depends on your knowledge of the system? Yes but kind of a pointless thing right? If this is the point your trying to make, which I highly doubt, then why are we focusing only on entropy? Because knowledge of any system is REQUIRED for every single mathematical model that exists or the model is useless.
I don't think your clear about the argument either. If your not talking about knowledge as a quantifiable input parameter then I don't think your clear about what's going on.
>I fully acknowledge that we may choose to ignore the additional knowledge and keep using the old model - and it may be good enough for some uses.
Entropy is used with full knowledge that it's an fuzzy model. It's based on probability. It doesn't matter if we "ignore" or don't know the additional properties of the model. The model doesn't incorporate that data regardless of whether that information is known or not known.
>They were the same in my example. Same volume. Same temperature. Same pressure.
No. The boltzman distribution changes with gas type as well. The models are different.
>For an ideal gas doubling the volume and the number of particules
In this case yes. But only for an ideal gas. I don't recall if you mentioned the gases were both ideal. Let me check. You did mention it. But then you mention the gases are different. Hydrogen and helium. Neither gas is technically ideal, and the quantum mechanical effects would likely influence the boltzman distribution when mixed. There are contradictions in your example that make it not clear.
>https://en.wikipedia.org/wiki/Gibbs_paradox
The article you linked explains it away. It's the choice of Macrostates, effects the entropy outcome. The article says it's subjective in the sense that it's your choice of Macrostates. The Macrostates don't change based off your knowledge. You choose the one you want.