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BOSS not ordering mods and not detecting some mods

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Hello all i'm having a problem with useing BOSS within Mod Organizer. Everytime i run BOSS according to the output HTML file at the end of the run the Mods are ordered in the proper order but isen't detecting all the mods i have enabled. But according to Mod Organizer's ESP's list in the right pane the mods arn't ordered and are staying in the same order as it was before i run boss but all the mods i enabled are showing in that list.


Anybody have any idea whats wrong?

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