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Custom keyboard shortcuts are reset. How can I make them set permanently?

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http://askubuntu.com – I'm having a problem with both Ubuntu 12.04 and 12.10 with custom keyboard shorcuts. They are reset after a while (I can't find a pattern but it seems to be when a massive upgrade happens). It happend to me a couple of days ago, when 12.10 got about 27 updates. I've searched launchapd and askubuntu, and found no question similar. My shortucts are not lost on reboot, I still can't find a pattern to identify the problem as I said. I tried also not using Control Center app, but gnome's dconf-editor, but same result as I found on some blog post. My question is, how can I save my custom shorcut (HowTos)