I've never done much with the shortcuts so I can't say much. The only thing I can think of where this happens when you restart is what are your launch behavior settings. I'm assuming you don't have it set to factory default but if you have it as the preferred state, did you remember to save the preferred state after you set all your shortcuts?

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Available on Amazon for the Kindle E-Reader Monster of the North and The Shimmering Mage

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