It's the same in Europe. As a visiting American, I'm in awe of the infrastructure they've built -- beautiful, clean, fast, charming -- but these were built with European society in mind, which generally raises kids to be respectful, clean, and polite.
But now there are a ton of pretty awful immigrants from the Middle East who harass women, destroy property, and threaten anyone they dislike... which is quickly making European cities very unpleasant places to live. I wouldn't be surprised if Europeans start their own version of white flight away from their cities.
I don't know about other European cities, but immigrants are priced out of the central areas of Stockholm, just like poor black people are priced out of Manhattan. I wouldn't be surprised if the same effect is true in other cities as well, due to the fact that most have been a lot more restrictive than USA when it comes to erecting high rises.
The problem is that you live in San Francisco.
The biggest problem in that list (safety/perceived safety) has more to do with the city than the transit system itself. It's not a brokenness in the transportation system (though more can be done to curb it, certainly), it's a brokenness in the society it serves.
It's always a little depressing to think about how so many other cities - both bigger and smaller - on this continent put the transit of San Francisco utter, complete shame.