You should be able to set up *either* bootloader (NT bootloader or LILO) to do what you want.
With LILO, you just need to edit lilo.conf and add an entry for your Win2k parition. And then rerun /sbin/lilo to generate a new boot sector.
With NT's bootloader, you need to add an entry in boot.ini pointing to a file containing the boot sector from your Linux partition. The format of the entry is a bit weird (don't recall the exact syntax). The BOOTPART utility refered to above should do this for you, so you don't have to edit boot.ini or read the boot sector into a file.
But even if you choose to use NT's bootloader, you still need to install LILO. You just install it onto the parition boot record rather than into the master boot record. Then when you choose Linux from the NT boot screen, it launches LILO which then boots Linux.