I had same issue. By the way, do not delete these files. In hindsight that is a no-brainer, but as I was not familiar with the new table structure, I didn't immediately realize this. After deleting these files, ArcCatalog crashed hard when I tried to view the gdb. Luckily I have back ups, but it put a nasty lock on some of the the gdb tables that not even specialty apps like Unlocker or Eraser could remove.