I just finished getting into vogga the hutts inner chambers by using the juma juice on the kath hounds and in one of the crates I found a "Two-Handed Lightsaber" or Great Saber. I have played through the game multiple times and have never found this item and I'm just wondering if anyone else has because I can't find anything about it anywhere.

Maybe you downloaded a mod? There's quite a few fan-created mods that give you things like that, since it isn't in the native programming as far as I know.