I brieftly covered this in my guide, and its covered here. You may have to open the virtual file wizard in the ISboxer toolkit and tell it to manage those files for Eve Online(Settings and Cookies) then the folders for each character wil bel at C:\Users\YOURPCUSERNAME\AppData\Local\CCP\EVE\h_eve_tranquility
You may need to login into your characters mess with their UI then logoff and exit to get the folders to show up.
You'll then open up Note pad and follow the instructions here. You'll then save it as a .bat file. From then on its pretty easy to copy settings in the future
Edit: If you haven't already AppData folder is hidden by default you'll have to click on Organize>Folder and Search Options>Show Hidden Files and Folders
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