Which ever drive shows up 1st in Ghost is likely the MASTER DRIVE on your system. Which ever drive shows up 2nd is likely the SLAVE DRIVE. With that said, let's take a step back for a moment and verify a few things:
1) Are both HD's on the same IDE channel? (Todays systems have two IDE channels: IDE CHANNEL 0 & IDE CHANNEL 1). Each IDE CHANNEL can support up to two IDE DEVICES (a MASTER DEVICE and a SLAVE DEVICE).
Note: While you can have a HD sharing an IDE channel w/ a CD-ROM drive and then install a 2nd HD on the other IDE channel, you diminish performance of the HD sharing an IDE CHANNEL w/ the CD-ROM. IDE channels work as fast as their "slowest" devices. CD-ROM's are slower than HD's.
2) Depending on the answer to #1, you need to configure your HD's as follows:
If both HD's are on the SAME IDE CHANNEL:
Make sure you set the jumpers on your two HD's such that one is configured as MASTER and the other is configured as SLAVE. Do not have EITHER DRIVE set to use "CABLE SELECT"
Note: Some Western Digital HD's have two MASTER settings: "Master w/o slave" and "Master with slave"
If each HD is on a DIFFERENT IDE CHANNEL:
Make sure you set the MASTER/SLAVE settings of the HD's accordingly on their respective channels.
If IDE CHANNEL 0 has an HD & CD-ROM on it and IDE CHANNEL 1 has a HD and nothing else on it, make sure you configure the drives as:
IDE CHANNEL 0: HD is MASTER, CD-ROM is SLAVE
IDE CHANNEL 1: HD is MASTER
(Of course I would re-arrange my IDE cables so that the two HD's are on the SAME IDE CHANNEL. Then one HD would be MASTER, the other SLAVE). The CD-ROM would then be configured as MASTER on the other IDE CHANNEL.
Ghost's search order for HD's is as follows
1st Possible Disk listed in Ghost --> IDE Channel 0, MASTER
2nd Possible Disk Listed in Ghost --> IDE Channel 0, SLAVE
3rd Possible Disk Listed in Ghost --> IDE Channel 1, MASTER
4th Possible Disk Listed in Ghost --> IDE Channel 1, SLAVE
Depending on what devices you've installed on each IDE CHANNELwill control which "DISKS" Ghost lists as available.