Ive got my kernel fully compiled, but when I open up lilo.conf to add it to the boot options, there are only options for Windows, and no Linux options. Is lilo keeping the directories different or something, because I cant find where my new initrd and kernel image should be pointing unless I missed something

woah that is definately weird. Just to clarify, are you looking at /etc/lilo.conf or one at another location?

I'll post my /etc/lilo.conf as a guide for you.(don't forget to re-run the command "lilo" after editing the file)

# LILO configuration file
# generated by 'liloconfig'
#
# Start LILO global section
boot = /dev/hda
message = /boot/boot_message.txt
prompt
timeout = 60
# Override dangerous defaults that rewrite the partition table:
change-rules
reset
# Normal VGA console
vga = normal
# VESA framebuffer console @ 1024x768x64k
# vga=791
# VESA framebuffer console @ 1024x768x32k
# vga=790
# VESA framebuffer console @ 1024x768x256
# vga=773
# VESA framebuffer console @ 800x600x64k
# vga=788
# VESA framebuffer console @ 800x600x32k
# vga=787
# VESA framebuffer console @ 800x600x256
# vga=771
# VESA framebuffer console @ 640x480x64k
# vga=785
# VESA framebuffer console @ 640x480x32k
# vga=784
# VESA framebuffer console @ 640x480x256
# vga=769
# End LILO global section
image = /boot/kernel-2.6.12-ck5
root = /dev/hda9
label = Slackware2.6.12
read-only
# Linux 26 begins >>>>LOOK HERE FOR WHAT YOU WANT!<<<<
image = /boot/vmlinuz-generic-2.6.10 #location of new kernel
initrd = /boot/initrd.gz #location of initrd
root = /dev/hda9 #the partition where the kernel is located
label = Slackware2.6.10 #what you want the bootloader to say
read-only #use this on all linux options
# Linux bootable partition config begins
#image = /boot/vmlinuz
# root = /dev/hda9
# label = Linux
# read-only
# Linux bootable partition config ends

Yep, /etc/lilo.conf, and it only has Windoze in it. Yet when I boot, I have options for Linux, failsafe etc...