Basically the structure is based on the roms GOODNAME (or so i understand it), i think OOT and Master quest has different internal names, and therefore the folder which the textures are stored has to have the same name as the ROM, but even then the texture values would have to be directly taken from the game to work properly, so u would actually need a texture pack that was made from the master quest ROM itself (im not entirely sure though since they are basically the same game except the extra dungeons and whatnot). Ive always added my texture folders in manually rather than using the import function as i only ever got banjo kazooie's to work with that method. I post an SS as an example.