Sorry, my posts were very confusing. When I said that he resigned "after" being confronted about the '98 accusations, I meant "after" in the chronological sense, as in "The confrontation occurred before the resignation." I didn't mean to suggest that the resignation happened as a result of the confrontation. Hope that clears it up.
I understand why you're assuming this. However, if they forced him out, why give him the emeritus status? All that changed after Sandusky's resignation is that he was no longer on the coaching staff. He still had an office in the athletics department and kept office hours. He still had open access to all of the athletics facilities. He still traveled with the team to some away games. And PSU still worked closely with his charity. If he was forced out because of his actions in '98, it makes no sense for them to keep him around.
Like I said before, I think it's more likely that they kept him around because they felt like it would be easier to keep him under wraps if he was still close at hand. But I'm totally guessing on all of that.
I'm not sure it's accurate to paint what happened between '98 and '01 as a coverup. Spanier, Curley, and Schultz cooperated with the police and the DA throughout the investigation. Spanier certainly should have gone to the BOT, but that's about as much as can be considered a coverup. Given that Sandusky wasn't charged, I think going public at that time would have been inappropriate. In hindsight, it would have been a deterrent to Sandusky's behaviors. But at the time he seemed to be nothing more than a dirty old man.
That said, I think it's a given that Sandusky was raping children long before '98, and it's quite likely that folks at PSU knew about it before the accusations came to light in '98. But I'm basing my comments on what we know to be true at this point, based on the Freeh Report and the legal proceedings.