Clean Energy Stimulus and Investment Assurance Act of 2009

Clean Energy Stimulus and Investment Assurance Act of 2009 - Amends the Internal Revenue Code to: (1) allow a new tax credit for investment in projects for manufacturing alternative energy equipment; (2) allow accelerated depreciation for smart meters and smart grid systems; (3) expand carrybacks and carryforwards of unused business tax credits; (4) extend the tax credit for producing electricity from renewable resources and expand such credit to include the production of thermal energy and zero carbon emissions resource facilities; (5) increase the national limitation for issuance of new clean renewable energy bonds; (6) allow expensing of manufacturing facilities for producing plug-in electric drive motor vehicles; (7) allow a tax credit for the cost of converting motor vehicles into plug-in electric drive motor vehicles; (8) extend through 2010 the tax credit for biodiesel and renewable diesel; (9) extend through 2014 the tax credit for alternative fuel vehicle refueling property expenditures; (10) increase the tax credit for residential energy efficient property expenditures; (11) allow an energy tax credit through 2016 for qualified energy storage air conditioner property; (12) extend through 2012 the tax credit for new energy efficient homes; (13) increase the tax deduction for energy efficient commercial buildings; (14) increase and extend the tax credit for nonbusiness energy property; (15) allow an energy tax credit for investment in green roofs; and (16) repeal limitations on the energy tax credit for property financed by subsidized energy financing.

Authorizes appropriations for: (1) smart grid research and development; (2) the Bonneville Power Administration; (3) the plug-in electric drive motor vehicle program; (4) the energy storage competitiveness program; (5) advanced battery manufacturing; and (6) the energy efficient appliance rebate program and the Energy Star program.

Amends the Energy Policy Act of 2005 to allow the federal government to enter into 30-year contracts for the purchase of electricity generated by renewable energy.