Update (3/14/14): Xcode 5.1 fixes this bug. When you drag to the top it'll add the appropriate top constraint and won't send your views offscreen or offset them incorrectly.
I do a lot of UI work in Xcode 5 with Interface Builder. I'm building class materials and this is a very common bug, that I didn't figure out a good solution until now. These types of bugs can make Auto Layout very frustrating to learn because it doesn't behave like you might expect. I'll describe the bug below, the solution, and a video solution for the curious.
Top Layout Guide Bug
If you add a view to a .storyboard or .xib file, you can align it to the top edge or just under the status bar. This edge under the status bar in Xcode 5 is called the Top Layout Guide. The guide is a helper for setting up constraints, but unfortunately it doesn't work as you might expect most of the time.
When you Right-click + Drag (Ctrl + Left-click + Drag) to add constraints to the Top Layout Guide it'll add the wrong constraint and your iPhone app layout will not be what you expect.
Instead of adding a constraint from the top of the view to the Top Layout Guide, it adds a constraint from the bottom of the view to the Top Layout Guide. For some reason this creates a constraint that pushes your view upwards and it conflicts with the status bar, or it'll go above the status bar.
The work around is to use the Menu bar options to add the constraint using the Pin menu. You can't add the constraints with the Right-click + Drag menu. Note: Delete any previous constraints to the Top Layout Guide, or the steps below won't help.
Editor > Pin > Top Space to Superview
After we add the Pin to the superview, we'll have to add all the normal constraints. You should see the following constraints (visually) if you look at the top view.
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