Does the noise change (quite down) when the clutch lever is pulled in? If so it likely is clutch rattle from some wear on the clutch basket. My 97 did it bad - so does my 2000. I bought my 2000 with about 800 miles of riding on it - and it did it even at that point (it now has 3000 plus) - its never been a problem, though eventually I may have to replace a clutch basket. Two of my riding buddies have 03 250excs - they both do it , not quite as much as my bike though.