I highly doubt it will affect the sound. I have jake's signature on the back of my kanilea tenor near the neck. And I had it done in industrial strength sharpie which is different from regular sharpie as it leaves probably like a fraction of a milimeter thick of ink rather than lying mostly flat. Difficult to describe, but this sharpie goes on more like a super permenant layer of paint. And it doesn't affect the sound at all. If you get a lot of them in regular sharpie, I still doubt that it will affect the sound. Mostly it's the asthetics, if you like having many scattered markings around on your uke.