This is still an issue for my system. The Arduino drivers for the Yun are not installing no matter what I try. I have tried all the previously mentioned tricks and down loaded the latest build. I have attempted to do a "no certificate required" install, back dating the computer into 2013, installing version 1.5.5-r2 Which has the certificate correction, and enabling port 5353 on firewall. No drivers were installed after each of these workarounds. I have a Mac Pro running Mavericks and Parallels Desktop running Windows 8.1. The Mavericks on the Mac pro can see the Yun board in the ports menu but the Windows 8.1 does not ever successfully install the ide driver so Windows does not see the board.
As a side note, The Arduino Yun board is recognized in Visual Studio Pro with Visual Micro plugin. I can make the WIFI connection via IP address. But no luck with the Arduino ide application.