Iv'e noticed a problem after 5.4, I cant play two different WoW with different settings etc. This worked very well before so that i could start wow from a folder with full graphics, addons with to play my main account on and another folder to bot on. Now when i start x86 wow from either one of them same wow starts.
Morning Lukeboy I had the same issue, what I did to resolve it is first right click on the first Wow Exe shortcut on your desktop. go to file location. now run the launcher in that folder make sure the x64 stuff is in the folder then close out after you launched wow. now move all the X 64 items into a backup Folder. now go back to your desktop right click on 2nd Exe shortcut open file location, if you remove the x64 stuff put it back in its original location, run the launcher, lunch wow, Than exit. not make sure you put all the x64 stuff back into the backup folder for both and instances of WoW. Now you should be able to launch them seprately.