Default Defaults and widgets disappearing on reboot Android 4.2.2

All the widgets that I use gets disappeared whenever I reboot my device. All the defaults apps get cleared too. I dont know why this is happening but I want to fix it.
One more thing whenever I use any module of Xposed framework which asks for soft reboot the device keeps popping up the message of unfortunately system UI has stopped. But the problem gets solved when I reboot my device but the changes made by the module disappears..
Is there any solution to it?
P.S. My device is rooted but I dont have CWM recovery.
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