The advantage of a program with a strong network of APPE sites is that during your APPE year, you are more likely to stay in one location (ie you don't have to pack your stuffs and move across states or country every 6-12 weeks). That also means less chance to have APPE sites in the middle of nowhere.
I think the in-person interactions with your classmates & professors are just as important as the course materials. Remember, your classmates & professors are all your potential co-workers or even bosses in the future. Having a good connection with them will definitely benefit your career later.