I believe you remove the last 3 lines (CurrentStruc... on down)
run .\foldtrajlite -f protein -n native -purgeuploadlist 1
then
run .\foldtrajlite -f protein -n native -u t
repeat until it starts uploading.
You can sideline that whole directory and start with a fresh install to, whilst you try to work thru it
Good Luck!
edit your foldit.bat and add -g 1 (like so)
.\foldtrajlite -f protein -n native -rt -qt -g 1