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You have to check the BW2 box in the main window. It seems that the Adjacent Seed Tool also uses the BW1 frames. So if you chose 3 as Min and Max Frame, it should work.
I have the same problem like AdroMaster. When searching for Gen 5 Standard Seeds with Reporter 9.9 I get completely different results than with 9.81, using the same adjustments. And they don't work. I'm using a black German version.