Sorry. I went to bed early and have been working on a real bugbear of a problem at work, thus my silentness during all of this.
In general, the correct procedure for doing this is simply:
mkdir /programs0
mkdir /programs1
mke2fs /dev/hda2
mke2fs /dev/hdc2
mount /dev/hda2 /programs0
mount /dev/hdc2 /programs1
You can leave off the /programs1 and /dev/hdc2 stuff if you have only one drive.
The reason I didn't include those instructions is because I assumed that genixia's script already did it and I didn't want everything to change all of a sudden for people not using it. (Maybe that's not a good reason.)
However, I'll go back and include those instructions on my web page ASAP.