Could you have possibly messed with the texture formats?
Like when you Import a texture into BrawlBox this pops up:

In the selected portion, where is says
Image :
Format: CMPR
MIP Levels: 1
If you change the format when you import the texture file, it might mess up like that. If you did by any chance change them, you will have to re-import the textures, and change the formats back to normal. If you don't know what the original texture formats are, they are:
FitLink00_Blade=RGB5A3, 1(<this number is the MIP levels)
FitLink00_BodyA=CMPR, 4
FitLink00_BodyB=CMPR, 1
FitLink00_BodyC=RGB565, 1
FitLink00_Eye_Hilight=RGB5A3, 4
FitLink00_Eye_Kurome=RGB5A3, 4
FitLink00_Eye_KuromeYellow=CMPR, 1
FitLink00_Eye_Sirome=RGB565, 4
FitLink00_Face=RGB565, 1
FitLink00_Grip=RGB565, 1
FitLink00_Inner=RGB565, 1
FitLink00_Sheath=RGB565, 4
I hope that this is your problem, for two reasons, one it helps you

two, I just typed all that
