I had the same concern, but I set them up via wifi. Going through the setup routine, your e-reader will search for a wifi signal. After entering your wifi password, you will be given the opportunity to create an account. Once you do that, you're set. I did this with my seven Kobos (7? Yes.) Three Minis, an Aura, an Aura H2O, a Clara HD, and a Clara 2e. Last thing to do is to log in to the desktop app with your new account. I use Pocket extensively, and I didn't have to change anything with that account.
As for side-loading, that's all I have ever done.
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