This is something that makes me think that there is even more going on with all of this that has yet to be discovered. Sandusky was just an assistant coach. Maybe he was a top assistant, and maybe he and JoePa were best buds, but I don't see why the football program couldn't move on without him. He would be completely replaceable for a program with the prestige and resources of Penn State.
There were allegations run up the chain a couple times spanning several years, and they failed to do anything each time. Why don't you turn it over to the police and release Sandusky from the program, issue a statement condemning his actions and saying how this is totally at odds with the values and principles of the program and blah blah blah. You do that and you reaffirm the image of your sacred football program as being one that does it the right way, and you get out ahead of the issue, JoePa protects his legacy, and so on. He is easily replaced, you go on winning games, and a year later hardly anybody even remembers that this happened.
A lot of smart people were involved in keeping this hush hush. From the facts as we know them today, I just don't see what their motivation would be in doing that. It really makes me think that something even bigger was going on that could have come up in an investigation, or that Sandusky had some dirt on Paterno or something else along those lines. Weren't there some rumors earlier in this ordeal that Sandusky wasn't just using his charity to find his own victims, but to also make contacts between kids a high level PSU donors? That is the kind of missing piece that would fill in the gap for me between the known issues with Sandusky and the handling of the allegations by the university.