torn cartilage ftw!
no srsly, if is really bad, you may want to get it checked out. you could mount your seat on bullhorns and use 2 brake levers, and it won't cure a medical problem.
if it is fit, like they say, it might fix it. but if you know a bit about road bikes from before, i bet you are familiar with fit.
don't mess with your knees if it keeps up. trust me. i have torn cartilage in my left knee and am procrastinating on arthoscopic surgery.