If she must have a title, I prefer "Mother of the Incarnate Word" because it requires no footnotes. One could also go with "Mary, the mother of Jesus the Messiah". That would clear things up in case there were other Mary and Jesus, as mother and son combos.
There's nothing wrong with calling Mary “the Mother of Jesus the Messiah”.
She has lots of titles, but the Church preeminently calls her the “Mother of God” because that title expresses the profound truth about her that destroys all the heresies that arise about her Son, heresies that seek to destroy the Unity of the Church founded by Jesus Christ.
The “spirit” behind heresy is primarily the desire to destroy the things of God.