"Will lilo work with my linux boot in a far down partition of a second disc?"
Probably. The only reason that it would not is if you have an older BIOS which cannot address the entire disc. In that case you could make a small /boot partition at the beginning of the disc and put / at the end.
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Be prepared. Create a LifeBoat CD.
http://users.rcn.com/srstites/LifeB....home.page.html
Steve Stites