It delends on the school. At NYU's info session, the admissions director told us to just pick one class, obviously the one you got a higher grade in, to count towards your pre req gpa- i.e. sociology or anthropology, advanced stats or elementary stats- but they will still see both grades when reviewing your transcripts.
Don't sweat your GPA, youre going to have a 3.5+, 3.9 pre req after you ace the rest of your classes. Most applicants will have around the same stats. Make yourself unique through your volunteer experiences, essay, and LORs.