Question on Deck set up

[DrSavage]

All dealers count the deck at least once per orbit.

[jar]

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Foxwoods dealers count the deck once per down

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well if they are counted how the heck does 2 of the same cards find its way into a live hand? The reason for the question is because they couldnt figure out where the cards came from and i was just a little bit nervous about it. I have only been playing in a B&M for 2 years and this was the first time i have witnessed this