Mr_goat, you may have extracted it to the themes dir, and have already the former core modules in your modules dir, if you had used the lstheme installer it would have given you an error, and if you didnt have popup and shortcut already downloaded, you wouldnt be able to download them.

west (from westep?), themers should etst their themes by removing all the modules they used from the common modules dir and try to install themes with lstheme installer, that's where the installer is heading.