Using the WDC drive partitoning software may not have been the best idea. It made one primary partition and the rest extended partitions. Then later it reports a Drive I/O Timeout error. Diagnostics passes on the drive. no errors found.
Booted up Knoppix, ran CFDISK made three primary partitions, one for 98SE, one for XP Pro, and another for Linux. OS/2 is going to be installed on a spare system, it works with older hardware better anyway.
I am formatting the drives now. I talked to my local friend who is a Red Hat Linux expert, and he said it would be better this way. He also said to use GRUB for larger drives, LILO has issues that have to be overcome.