I applaud GitHub. However, I think no matter how valiant they are they will not climb out from under this. The scale problem will keep getting worse, and it's getting worse in a way I don't think is translating to more money for them. Sooner or later, they're going to have to charge for things currently free.
I've been saying this for a while: https://news.ycombinator.com/item?id=47534499