I don't think I'm exactly sure what you mean. The mobi7 files/folder aren't a part of the split-out KF8 file--any more than the KF8 folder is. In addition to unpacking the content into the various folders (for inspection/editing/conversion, etc...), splitting a kindlegen-created book gives you an .azw3 (representing the KF8 portion) and a .mobi (representing the mobi7 portion).
Keep the AZW3 and delete the rest if that's all you're interested in after splitting. None of the files/folders are necessary for Kindles (new or old) except for two: the .mobi and the .azw3.
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It would be highly useful to be able to output a KF8 FXL with the smallest file size possible for use in distribution via non-Amazon outlets.
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Keep in mind that charging money for Kindlegen-created books on non-Amazon outlets runs afoul of the terms under which you're granted permission to use Kindlegen free of charge. Distributing for free is fine, though. I don't pretend to know how aggressively they would pursue such a license violation, I just thought you should be aware.