I saw a few games where it wasn't that way, it was always treated as a bug.
Think of it from the user side: People are used to their shortcuts. They are used to press CTRL+Z where it is on their layout, as their keyboard keys will also be printed accordingly. Someone with a non-qwerty-layout may have never seen CTRL+Z leading to the physical key on the bottom left, for them it was always somewhere else. How would they know what to press, when the config says CTRL+Z, and they press CTRL+Z on their keyboard and nothing happens? How would someone who grew up with azerty know qwerty?
If you want to support "what people actually use", the keypresses have to be evaluated according to the actual keyboard layout used. I say this with absolute certainty, and as a multilingual developer who switched from qwertz to qwerty and had azerty in use as well for a time.