If the author meant 2+ hours round trip: Lots of tech employees making 200k+ do this regularly. For example, driving from your house to the Fremont BART station and taking the train into downtown San Francisco can easily take 1 hour and 15 minutes one way.
If the author meant 2+ hours one way: There are affordable areas outside of San Francisco's borders that have a reasonable commute. This is especially true if you're willing to have roommates, although that would be more difficult if you have four children like one of the employees mentioned in the article. Oakland comes to mind - you can take the BART from Oakland to the Mission (where the restaurant in the article is located) in ~35 minutes.
While I do think that there is a housing issue in the Bay Area, I don't think the lines you quoted from the article are fair.
At most you could claim: "A worker in food service with family will not be able to afford living in SF, as a restaurant will not be able to pay the needed salary without raising prices above what the market will bear"
Here you go: https://techcrunch.com/2014/04/14/sf-housing/
All the numbers and data have gotten worse in 2014.
Oh yeah, and SF's onerous rules are making it even harder to expand the housing supply: https://www.bizjournals.com/sanfrancisco/news/2018/12/19/hou...
High-paying small businesses, especially when employees do not have children to support, do fine. It's not like you see mass retail vacancy in SF.
I can understand why people with valuable skillsets are willing to balance the cost of commuting from their dream homestead to their place of work but I can't see how this system works for those on the bottom rungs of the societal ladder.
Long commute times makes it far more difficult to hire. Why wouldn't an employer care about that?
Me: Think about what you just said.
My takeaway from the article is that all "middle class luxury" businesses are slowly being priced out of SF, which is a non-issue for everyone living outside of that bubble but should be of enormous concern to those banking on the future success of the area. Eventually no one will want to move there for a price employers can afford to pay. In the grander scope of things, I'm actually supportive of the concept of fast food and cheap dine-out businesses going under because the habits people form around them are killing us as a people.