I would first start with an Italian Tune-up. Break in your brakes, again... basically.
Firmly (not completely slamming, but close) apply your brakes and bring your vehicle from 50 to 10 mph several times. Eventually, you will smell the brakes. At this point, ride around normally to get some air flowing around the brakes and let them cool off.
The point is to attempt to scrape off the old pad material and give the brake pads an opportunity to lay new material onto your rotors. This is easy, quick, and free to do. I would start there.
All else fails, I suppose it's possible for your rotors to have gone bad, but I doubt it. Have you had any emergency stops at highway speeds? Do you generally brake a lot? I mean it's possible. It's not like the stock brakes in an Accord can take much abuse, anyway.
For what it's worth, I replaced the rotors on my Mazda 2 at about 60k miles and I autocross the car. I generally hoon it, or at least pretend to with its 75 horsepower of fury.