From everything I’ve read, Harvard is looking for confirmation in the form of top AP scores to confirm a students grades in the classes they have taken. If a student chooses NOT to submit AP scores, but those AP classes appear on their transcript, Harvard will assume the worst. IMHO, that is reason enough for Admissions NOT to move a student’s application forward. Therefore, applicants need to pay attention to what is written “between the lines” in statements from Harvard’s Admissions Office.