I really don't think cost can be separated from this discussion. However since you asked, check out the first time pass rates of the NPTE. They are comparable.
Two-Year First-Time Pass Rate by School
The other things to consider is cohort size and location (living in Fresno and doing your rotations in Fresno = getting first job offers in Fresno), and quality of education.
Despite any benefits APU has, I would never go there over Fresno because of the cost benefit alone. You're looking at more than $40000 cheaper (Fresno is the cheapest school in CA) in tuition alone along with living costs (Fresno being extremely cheap COL), and you could be saving more than $50-60k.
If cost is not being a major influence (as in your parents are paying for your education) I still would not feel comfortable spending that much of my parents money on such a small difference in education, since you'll be getting the same degree. It is irresponsible. Perhaps ask them to invest it in a savings account that you can use as a down payment on your first home instead.