I will see what I can organise mate... It definitely does seem that you are missing some things if it is only a little over 9Gb decompressed. I pulled my copy from the Archive.org link that was posted some time back, itself being pillaged from the original Apple site in around 2012. 
It seems fairly complete, and is about 11.4Gb from memory when decompressed.
This said, I did notice that dribs and drabs are still up on the Apple server... for instance the IIgs software is still actually hosted, however most of the other links come up dead, making it seem as though it is little more than just a dead shell of a directory stucture now with the odd bits and pieces still remaining in dark corners.
It's always quite possible that you ripped your particular copy of the site at a time when the decay had already began but was not yet to the point where the site was a skeleton and a majority of the files were still intact.
It seems fairly complete, and is about 11.4Gb from memory when decompressed.This said, I did notice that dribs and drabs are still up on the Apple server... for instance the IIgs software is still actually hosted, however most of the other links come up dead, making it seem as though it is little more than just a dead shell of a directory stucture now with the odd bits and pieces still remaining in dark corners.
It's always quite possible that you ripped your particular copy of the site at a time when the decay had already began but was not yet to the point where the site was a skeleton and a majority of the files were still intact.