Eclipse is a good tool for developing C++ programs in Windows. Setting up the environment sometimes cause problems for a lot of developers. Here are steps that can make it work under your Windows system.
1. update eclipse galileo to helios.
2. add CDT plugin
3. install MinGW
4. Create a sample project, and see the project’s structure, IBM website has a good article for a sample project.
http://www.ibm.com/developerworks/opensource/library/os-eclipse-stlcdt/