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You could either copy all individual ebook files to one folder, and all the ebooks in subfolders into another folder, then 'Add books' with the 'every file is a different book' and 'all files are the same book in different formats' - options, respectively. Two mouseclicks to import all your ebooks (plus a few Windows-searches for the various book-file extensions if the ebooks are all over the place.)
The other option is use a utility like 'files2folder' (download and run as adminstrator to install as shell extension) to create a subdirectory for each individual ebook file, then import the whole lot with the 'all files in a folder are the same book in a different format' - option.
PS: If you ebook files are in different calibre libraries already, you can just copy them all into a single library without re-importing (make sure to set the right duplicate/merge options in the preferences first.) To copy, select all the books you want to copy and choose the copy-command in the right-click menu.
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