The new LEED for homes standards are fully up and running (since January 2008) and are now gaining momentum and popularity across the country. If you are interested in building a green home and want the certification with the highest level of visibility and most brand recognition, LEED is definitely the way to go.
Integral to the certification is obtaining a HERS rating and becoming Energy Star eligible... In most areas of the country there are considerable financial incentives to do this. Generally the cost of the HERS rating is completely covered, and often you can gain extra money to cover the entire certification process plus some - these would all be in addition to the financial incentives that are locally and nationally available for your gas water heaters, solar power or water, insulation, energy star appliance rebates, etc. For information on what is available locally, check in with you local government or contact your local LEED for homes provider or field agent.