I've recently noticed when playing with my bud that "i think" eco manager script for automatic mex upgrade slightly breaks certain mission upgrade limits.
I base that on the mod doing automatic mex upgrade que up to t2 and even t3 in second mission of vanilla aeon and cybran campaign which i think shouldnt be possible unless some rules changed. Although i asked my bud if he can upgrade mex and he couldn't. I dont think i also had the specific upgrade icon for them aswell.
Maybe eco managers automatic mex upgrade script skips build restrictions on mex (that might also apply to normal multiplayer games so it may be harmfull and opens way to expoitation >> i didnt test that though << ) but if this mod still gets new updates could you please look into that.