It makes sense in the context of a configuration language because virtually 100% of programmers and other technical computer users understand “true” and “false” as the canonical Boolean values, and as far as I know that has always been the case. It never would have made sense to invent different unfamiliar terms like “yes” and “no” because of some niche philosophical distinction between “Boolean logic” and “configuration” that almost nobody in the real world cares about.
They are familiar as English words, yes, but unfamiliar as terms of art for Boolean values in computing. It’d be like replacing “if” statements with “whenever” statements.