If your city has brain eating amoeba in its water supply, I think you've probably got bigger shit to deal with. (See what I sis there, lol) Seriously though, yes. Distilled isn't expensive enough that you shouldn't be using it. Boiled city water still has enough chemicals in it to burn a bit.
Use distilled ONLY. With good chlorinated city water systems it's still very unlikely to happen, but it's such a horrible way to go, just get some distilled from the store.
Now.