Windows really wants to be the master, I think; in fact, it wants to be on the
primary master. My configuration is that the linux drive is the primary
master and the windows drive is the secondary master, but LILO remaps the
drives when booting windows to make the windows drive the primary on the fly.
Here's the relevant section of my /etc/lilo.conf:
[snip]
other=/dev/hdc1
label="Windows"
loader = /boot/chain.b
map-drive = 0x80
to = 0x81
map-drive = 0x81
to = 0x80
table = /dev/hdc
[snip]
I had a similar problem as yours; I finally found the answer in a SuSE manual.
Of course, now it doesn't matter, as I don't boot into windows anymore......
:)
Hope this helps,
David Richmond
drich@symphonicman.com