Tower Hamlets saw emissions of the greenhouse gas rise by 17% between 2005 and 2006, according to government figures published.
The statistics showed 90% of the increase was caused by electricity use by businesses.
Ribble Valley saw the biggest decline in emissions over the same period - a drop of 26% - with a reduction in non-fuel and solid fuel emissions from businesses responsible for most of the decrease.
Overall 42 councils saw emissions in their areas rise by more than 5% and 35 areas had a drop in emissions of more than 5%.
The figures, from the department for food, the environment and rural affairs, cover 2005 and 2006 and are the first emissions statistics for those years deemed accurate and comparable enough to be classified as National Statistics.
North Lincolnshire has the highest carbon dioxide output per head outside the City of London.
The figures show nearly 70 tonnes of the green house gas were emitted in North Lincolnshire for every resident. It has particularly high emissions from industry and is home to the Corus steelworks.
Only the City of London had higher emissions, but it has a very low resident population and a large number of businesses making its emissions per head appear exceptionally large even though its total output is not the highest.
The other authorities making up the ten highest emitters per head were Redcar and Cleveland, Wansbeck, Neath Port Talbot, Rutland, High Peak, Eden, Falkirk and Ellesmere Port & Neston.
Argyll and Bute had the lowest per capita emissions at 3.36 tonnes per resident. Highland, Castle Point, Hackney, Weymouth and Portland, Merton, Gosport, Lewisham, Waltham Forest and Redbridge made up the rest of the ten councils with the lowest emissions per resident.
The north east had the highest overall and industrial but lowest road transport emissions per head. The south east had the highest domestic emissions at 2.6 tonnes per resident with the other regions emitting between 2.3 and 2.5 tonnes per person.