Using the pre-3.0 Yubikey Neo Manager all 3 modes activated it did not work with the tray applet on Ubuntu Trusty.
After performing _all_ recommendations in this thread, I am now cloggin my network with the installation of 0.5 Gigabyte huge qt4-sdk in order to compile version 3.0 of the neo manager.
Now I ended up with an egg file which after doing an easy_install indeed does install a tool called "neoman". Starting it yields in version 1.3. Hurray. Now I switched on all three ticks to activate all three different modes - result: The oath applet does still
not work!
While the YK is an extremely cool and easy-to-use device, which I am actively promiting, let me just openly say that the user experience so far
completely sucked on Linux.
Hours and hours of troubleshooting, googling and forum thread reading to get this to work, and in the end, it did not.