I had the same issue and here was what my solution was. I had duplicates of the same material from editing meshes on export and re import. I had placed the duplicates in the same folders and I guess the file path name was too long or something so the reference wasn’t saved properly or something. I replaced all the references to the duplicates with just the original which I placed in a top level folder and then the compile stopped happening. I’m not a fan of how short the path names have to be in UE4 because it keeps me from organizing with folders as specifically as I like.
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