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So is he an official Mark? I just beat Hell Wyrm and I still need to beat Omega, Zodiark, and Yiazmat. Do I just go to the place in the Great Crystal where Omega is at and fight him? And how come I can't find the area where Zodiark is? I go right where they tell me to go...
Omega is considered a Boss, like Hell Wyrm, so he should be there if you go to the right place.
Have you got ten Espers? Yugelo in Jahara has someone unlock a door in Ore Separation in the Henne Mines if you do. If you've already got the path open I believe you can find a map on gamefaqs.com.
Omega Mark XII isn't an official mark; just an optional boss.
I believe that you have to accept the Yiazmat hunt first before you can fight him. If you try to go to him otherwise, then he will just be immobile/asleep when you get there, and you won't be able to fight him.
As BG-57 stated, you need 10 Espers before you can get the path to Zodiark open. Also, you have to complete the Mindflayer hunt.