No, not really. The pad is there to avoid sitting on a seam as well as to wick sweat. Remember, saddle sores are a result of both bacteria and chafing, so a good pair of shorts will help mitigate both of those issues.

Even compression shorts are made, in part, to wick sweat. Not sure where the seams are, though I'm gonna guess they are right up the middle, which is the worst place if you're cycling. I'll stick to bike shorts.