Thanks to Squize at Tales From the Code Front I was pointed to a tip on how to block popups that are snuck into firefox via flash.
Pretty handy. If you need to let a specific site use this technique (for security purposes) Just add that site to your whitelist.
To edit your whitelist I think you just need to:
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Goto Tools Options -
Choose Web Features
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Click on the button “Allowed Sites” by block popups
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Enter the site url
- Click Allow