The only franchise that has failed is Connex South Eastern. The Strategic Rail Authority incurred costs of £3.8 million, over and above those recovered from Connex. The details can be found in the National Audit Office's report of December 2005, available on their website at:
http://www.nao.org.uk/publications/0506/the_south_eastern passenger_ra.aspx
The former GNER franchise was not surrendered, but was converted to a management contract before being re-let. The costs incurred by the Department for Transport were covered from the franchisee.