Ok. Hopefully it is a cap-exempt organization because if it isn't, then you will not be able to apply for an H-1B until after April 1, 2013 and you will not be able to come to the U.S. and work until October 1, 2013 (they allow you to come in up to 10 days before October 1, 2013).
And as far as the waiver, you can apply outside of the U.S. just as you would if you were inside of the U.S. It is the same process. Here is an official link:
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