Thanks for the notice, maciekl. I wasn't aware of this. I wish they had contacted me first, though.
About alternatives, the only one I could recommend at the time is the Jetpack plugin. I don't believe they offer the same features as WPP when it comes to customizing the popular list, but it should do the job for the time being.
I'll try to get in touch with GoDaddy and see if we can get things sorted out.