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"Android is upgrading:Starting Apps" Every reboot.

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http://forum.xda-developers.com – This is something that's bothered me since upgrading to 4.1.1. Doing just what the title says. So far, I've tried clearing the dalvik cache, wiping the cache partition, uninstalling titanium backup and restarting, as well as uninstalling ROM toolbox and lucky patcher. I'm rooted with chainfire's "quick" method but I also had root before upgrading from ICS. I also tried bin4ry's universal ICS/Jellybean method after upgrading before finding chainfire's, witch, I am suspicious of bin4ry's causing the bug in the first place. The message shows briefly after the glowing "Samsung" (HowTos)