First post, by auron
putting this out as a quick reminder, because i ran into this problem and could not find a clearly written solution anywhere. the problem was that the 98se CD was being detected as bootable, but wouldn't actually boot, and no amount of changing SCSI/IDE, drive letter boot order would do anything.
in the end, the issue was that the floppy controller was turned off - the FDC needs to be on as well as an A: drive set in BIOS in order for this to work, at least with this adaptec controller. it's due to it using an emulated floppy, which can be a bit counterintuitive because it's not used when booting the same disc from an IDE drive.