We decided our daughter would take my name because my wife's brother had two sons that would continue her family name. And considering my daughter is queer, it's not all that likely she's going to have a kid anyway. Not that we knew that at the time (although I used to joke that I hoped she would be because I wouldn't have to worry about her getting pregnant as a teen).
This happened in my family, to me, and yes. My middle and last names are my parents last names. Another person I know took the hyphenated version of their parents last names.
I grew up in a house where my mother, my, and my stepfathers last names were all different. It caused small problem maybe... twice. It's really not a big deal.