Kobo Desktop 2.1.3 is working fine for me atop Debian Wheezy/sid x86_64
I'm sad this app does not offer anything beyond my actual Kobo Touch, yet I'm grateful I have local copies of my Kobo books and can read for short periods of time on my laptop.
I hope devels at Kobo realize that having proper Linux support and trying to expand their Canada/US centric market is the best bet their company can make -as far as I can tell.
Thanks for the app. 
My suggestions: 
- Let the user handle book tags from Kobo Desktop (single dialog/menu). If possible from the device library much better! (i.e., reading, read, favorites and so forth) Books marked as reading after a short check are a hassle.
- Use openSUSE (actually Novell) BUILD service to pack Kobo Desktop for more GNU/Linux distributions and make package repos available without extra effort on your side (think about it -I can help if needed)