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It's due to changes Apple has made in LaunchServices. What those changes are, no one can say, because it's a "black box".
Some caches, including part of LaunchServices' cache, aren't copied when we copy a drive. That's because the cache itself is invalid. But, when OSX rebuilds the cache automatically in recent versions of OSX, it does it wrong, which is why -- in some situations -- it has to be rebuilt by hand.
The files are the same, though -- and, hopefully, Apple will resolve the problem in a future release of OSX.
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--Dave Nanian
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