Don't know 'bout the intake.

I'll make the assumption that you're not hitting the brakes hard enough to engage the anti-lock system...The '03 Accords had brake issues; very well known problem. Search HAN, there's mucho info. on this. The original pads were too hard and caused the rotors to warp. The dealer should fix this free of charge if that's indeed the problem. They may turn down the rotors, and install better pads.