Kobo Desktop Software does *not* work with Linux, but you don't need it. (You, do, however, need Wifi so the Kobo can connect to the Internet and take care of itself. This can be worked around, if that's your preference, but that takes a bit of skillz, or, at least, the patience to find and follow instructions.)
As far as sideloading (both content and firware updates.), as already mentioned above, Kobo works just as well on Linux as Windows/Mac.
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