Strange, when I uploaded the woocommerce plugin, I got 682 files. The count on the folder on my local machine was 687.
In my hosted domain, mcdstaging.info, I created a folder named godaddy-test. Inside that folder, I uploaded a zip file containing 3 of the files that failed plus one that worked. That zip file was extracted (using File Manager) inside godaddy-test to godaddy-upload.
I verified that uploading one of the single files with Filezilla still silently fails.
In case it matters, I am using Filezilla 3.9.0.5 under Windows 7 Pro.
I hope that gives you enough to recreate the problem. If not, please let me know.