CyberDrop uploads in order of file name but then shows the latest uploaded images first in the albums. This userscript sorts files by descending file name order before uploading them. To ensure that it works properly you should set the parallel uploads to 1, otherwise some of the files may still be switched around when one of them finished before the other.
Link:
https://github.com/LenAnderson/CyberDrop-Sorted-Uploads