copy eisa partition to new drive

I got a new hard drive for my Dimension 2400, and used Copy Commander to copy both the EISA partition and the NTFS partition with WinXP to from the old drive to the new drive. I know that it successfully copied the contents of both partitions because if I boot from a Linux live CD and mount the EISA partition I see a reasonable list of files there.

When I boot off the new hard disk, it takes a very, very long time for the BIOS to do its thing, and then I get the "Press F1 to Continue, F2 to run Setup Utility" message. When I press F2, I go into BIOS setup and everything looks fine. On next boot, the same thing happens.

However, if I attach the old drive as a slave, the boot process happens very nicely and quickly, presumably because the EISA partition on the old drive tells the BIOS what it needs to know. Also, when I go into the WinXP Disk Management tool and look at the partitions on the two disks, the EISA partition on the old disk is identified as an EISA Configuration partition, while the one on the new disk is just a FAT partition.

I see that there is a utility for Dell servers called the Resource Configuration Utility or EISA Configuration Utility which can be downloaded and run to handle this sort of situation. I don't see any such tool for the Dimension series. Is there any way to rebuild the EISA partition to match a hardware change?

(I saw stuff about the utility for servers at http://support.dell.com/support/topics/global.aspx/support/dsn/en/document?c=us&cs=19&docid=B2ED888E1BBA454981099FC0B8D7116E&journalid=6F6A7274553B11DBA6B3F13EC484CB34&l=en&s=dhs )

Thanks for any insights.