As the cost of a 1TB hard disk is low now, I ditched my 3x smaller IDE hard disks and replaced them with a single SATA 1TB drive.
I had a problem with HDToolbox on 3.9 so I had to initially prep the drive with HDInstTools and then go back to HDToolbox to install SmartFileSystem 1.279:

The System partition was kept within the first 2GB of the drive and formatted with SFS\01
The other partitions were formatted with SFS\02