Displaying wrong height in 4-inch iPhone simulator

Question

I'm using Xcode 4.6.3 and my storyboard looks like this ,
When I run the app in any other hardware configuration (All sizes, iPhones and iPads) it works perfectly except the 4-inch retina. It cuts off at the top and at the bottom.
When i press home on the simulator the home-screen and the rest looks normal
I'm completely baffled by what can cause this and i don't have an actual device with that size to test on.

Answer 1

Anyone with this problem in xcode 5 (with your [email protected] already included) may want to try creating an Asset collection - it fixed it for me (it also fixed a problem I had of icons and launch images not updating in the simulator)!