I always tell people to retake a bad MCAT if they have the GPA to get into MD schools. However, your GPA is low, as well. So you will have to go with applying to DO schools. I don't advise taking the MCAT anymore, because you likely have plateaud. I am surprised you were interviewed by any MD schools, but it is what it is. Maybe it was because of your masters GPA - what is your masters in?
You can retake the MCAT while applying to both MD and DO schools and see what happens. You will likely not improve very much on your MCAT, so having the DO schools on there will be a safe bet.