Yes, that can happen if you were using your mouse while QFEInstaller is working. No problem, just click on the correct button (if a QFE dialog is still open) and QFE Installer should continue. If there's no dialog box open then just kill the DOS box, remove the already installed QFE's from update.lst (but don't delete it) and restart QFEInstaller. It will only install the QFE's still in the list (and not reinstall the ones you already installed successfully).
RE: For some reason...
Yes, that can happen if you were using your mouse while QFEInstaller is working. No problem, just click on the correct button (if a QFE dialog is still open) and QFE Installer should continue. If there's no dialog box open then just kill the DOS box, remove the already installed QFE's from update.lst (but don't delete it) and restart QFEInstaller. It will only install the QFE's still in the list (and not reinstall the ones you already installed successfully).