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This is the first I knew that there was any option. I wasn't sure what would happen if I didn't catch them, but I assumed they'd just keep standing there until I did. In any event, I just went ahead and caught them as I encountered them and stuffed them in the "Legends" box, where they'll stay, and eventually be joined by whatever other legends get doled out.
I still haven't bothered to catch them in either Black or Black 2. I generally leave legendaries until I'm ready to SR for a decent nature. Needless to say I rarely get around to it. :P
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