The Reds hooker was initially named on the bench for the Bledisloe Cup encounter in Brisbane.
However Fainga'a damaged his hand in training on Tuesday - with tests revealing he had broken it.
As a result James Hanson comes in on the bench as Australia attempt to halt New Zealand's 16-Test winning run.
The injury to Fainga'a is the latest blow for Wallabies boss Robbie Deans, who saw Digby Ioane and Dom Shipperley also ruled out in the build-up to the match.
Gilbert has released a new line of rugby cleats. The Gilbert Virtuo 8S is part of the exciting new product. Check it out.
The entire All Blacks apparel line has been updated for 2013/14. Check out the New Zealand All Blacks polo.
The Nike Tiempo is a solid rugby cleat and one of few styles still made from full-grain natural leather.
The Gilbert Blitz 8S rugby cleat is a great cleat at a great price of $69.99. Get a new pair of cleats today.
A cool looking all black rugby cleat with the high performance adidas is known for. Get in the Gear!
Wear the crest of the British and Irish Lions on your t-shirt. A great look for the summer.
The All Blacks Performance t-shirt is black with hints of blue from the training jersey. Very Cool.
The New Zealand All Blacks training jersey for 2013/14. Get in the Gear!
The USA Rugby Pro Alternate rugby jersey is perfect for any fan of the Eagles. Get yours to wear during the summer Test matches.
The NEW All Blacks 2013/14 jersey has arrived at World Rugby Shop. Dare to wear the colors of the All Blacks.