I’m perfectly aware of what Miss Manners says about this; I own that book.
But the shoes thing isn’t a hard-and-fast etiquette rule; it’s Miss Manners speaking from her (considerable) authority. I think she’s right most of the time. I happen to think she’s making a hard-and-fast rule in a situation where one isn’t called for. I also think she’s labeling a lot of people “rude” who aren’t.
Demanding that guests remove their shoes is rude. Making a polite request isn’t. I’ve never made anyone uncomfortable or forced them to take off their shoes. I make it clear that they’re free to refuse, and some do.
Furthermore, I do happen to live in a part of the country where the “no shoes” thing is pretty much local custom, for practical reasons. So what if we’re not Japanese? Our customs are still entitled to respect.