You have Maxtor, Western Digital, Seagate, etc. They all have different jumpers and usually the best way to transfer data/system is to use the manufacurer's own software [found on their own site]. If, for instance, your new drive is Maxtor, go to the Maxtor site and download Maxblast. This is a utility, with instructions, which shows you how to migrate everything to the new drive! The drive makers understand users' problems and really try to accomodate. All of them have their own software to achieve your needs.
Best of luck. Martin