We have found more information out, it does seem that we can get it resolved but don't know exactly how long it will take. Over 200,000 organizations had the same thing happen to them so a lot has been written about it.

"Notice 2011-43 This notice provides transitional relief for certain small organizations that have lost their tax-exempt status because they failed to file a required annual electronic notice (Form 990-N e-Postcard) for taxable years beginning in 2007, 2008 and 2009. A small organization – that is, one that normally has annual gross receipts of not more than $50,000 in its most recently completed taxable year – that qualifies for the transitional relief under this notice and applies for reinstatement of tax-exempt status by December 31, 2012, will be treated by the Internal Revenue Service (“IRS”) as having established reasonable cause for its filing failures and its tax-exempt status will be reinstated retroactive to the date it was automatically revoked."

Mark has been getting it resolved and has found some great information on the problem: http://www.irs.gov/newsroom/article/0,,id=240239,00.html

A cryonicist found these for us:

http://www.irs.gov/pub/irs-drop/n-11-43.pdf

http://www.irs.gov/pub/irs-tege/n2011_44.pdf

http://www.irs.gov/charities/article/0,,id=240101,00.html

http://www.irs.gov/charities/article/0,,id=239696,00.html

http://www.irs.gov/charities/article/0,,id=169250,00.html