SP23HO - If the scratches can be removed with a quick machine polish, then this is no problem. You can just get the person applying the Opti-Coat to remove them before hand. We recommend you get a good machine polish beforehand anyway if your car isn't new (and also if it is new and got slaughtered pre-sale). There's no point laying down a layer of Optimum clear over factory clear that is damaged!
Yeldarb - I'm looking forward to seeing the pics and I hope it lives up to your expectations. I had plans to do my MPS over this weekend but those plans have now been ruined.