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I know they came out but I'm starting to think they need to be tossed in the misc. hardware can. Thinking back on it I seem to recall 1 of them falling out when I removed the fairing skirt and I removed the other one as it was stuck to another part and I wanted to keep them together. Ya know it was one of those things where I thought "no problem, I'll remember where those go". This pic shows where I thought they went but I'm not so sure now.
Shoot Dawg and/or TwinCam47 a PM and ask them. They have access to parts books which will show what parts are use with the skirt and inner fairing at the forks. It's been so long since I did my painted inner fairing I just don't recall.