Today in the morning I tried to compile my project to run in my device and I found the destination toolbar disappeared and I cannot choose my IOS device or IOS Simulator dev
Go to Product then Destination and choose at which simulator or device you want to test your build.
I came to SO looking for an answer but realized that I had seen this issue before.
So the problem is basically that auto layout sucks (I mean it is not working properly in Xcode 6) and on El Capitan, the destination toolbar is for some reason hiding instead of collapsing properly. So when your Xcode window is narrow, the destination toolbar disappears.
But, if you expand the window far enough, it shows back up again.
In case you can't tell, in the first screenshot, the window is about 1241 pixels wide and in the second screenshot the window is 1541 pixels wide.
Not a fix as such but you can work around it using the menus: Product > Scheme and Product > Destination
right click on title bar -> select show toolbar
You're probably running into the same issue I am. Like @BrandonWilliams said in his answer, it appears again if the Xcode window is wide enough. The underlying cause, for me at least, seems to be that in this build of Xcode (6.4) running on El Capitan beta 2 (with Xcode 7 beta installed), I am seeing duplicate simulators for iOS 8.4. And since there are two of the same version, the Schemes dropdown shows some sort of long GUID next to each one, causing the Scheme dropdown to be quite large: