They've mostly fixed that. I didn't spot any remaining commanderies that were still named after cities or provinces, except for Luoyang, which is still called Luoyang, even though everything else got renamed.

There's some commanderies that are anachronistic or oddly shaped. For example, Xiangyang wasn't separated out into its own commandery until I think midway through the period, and while they've renamed Jianye into Danyang, it's still overly large.