Michigan isn't a terribly dense state but has a large Muslim population.
My rural hometown had a population of around 2000 people, and supposedly around 10% or so are hmong. They weren't treated any differently as far as I knew; several were part of what passed for the preppy / popular clique in school.
I am a white male, and get plenty of stares, because I am unusually tall and have an unusual hair style. Wherever you go, if you stand out, people will notice. That isn't a bad thing, and it doesn't mean people don't like you.
Looks like the oldest mosques in the united states are in places like Maine, North Dakota, and Iowa (in addition to obvious places like NYC). Like I said before, this is a big, diverse country.
Wear a mossy oak hijab into the rotation if you want to go out of your way to fit in (or just don't any you'll probably be fine).
IMO you tend to get less racism in rural areas than you do in suburbs but when you get it it's not as obscured. It's a million times more about class and culture than it is about race.
As an openly transgender person, I had the same thought. Specifically, in the Bay Area I can be a walking pride flag, and in fact strike up conversations with all kinds of people in all kinds of places and feel very connected. There's all kinds of community here that I haven't found other places I've lived.
In a lot of parts of the country I have to be very careful about what I say and how I present.
In a lot of other countries, my very existence is criminalized.
If your wife wears a hijab, then you are right, you will need to stick to a few very specific parts of the US. The good news is that in those parts, you'll probably find a thriving Muslim community to interact with.