I just had my clutch (well, the whole engine) apart on my 99SE and that part doesn't look like anything I came across. I didn't take off my footrests, but it does look like some kid of pivot pin that would get cottered. As for the clutch and engine, I spend a LOT of time looking at parts and part diagrams.
Now I just need a bit warmer weather to finish putting the bike back together and see if it runs and/or I fixed what was broke. If I find a part like yours on the workbench when I'm done, I'll let you know.
06 Wee Strom