The Needle in a Haystack
As it turns out, the beta version of NML wasn't actually broken. In-fact 99.9% of everything we did works great. There is one needle in a haystack though, that is bringing down the house like a lost game of Jenga. Locating the specific object, and then fixing it will require tedious amounts of time spent sifting through the files. Thanks to a somehow recycled BF2 missile trail, the entire mini-mod fails to load on map start-up.
Other problems like the linux issue, can easily be fixed in other ways. For now, I spend my time sifting, in hopes of stumbling across the object that has screwed the entire object.