One of the most important features in CodeCommander is the "Session" saving capability. These are not full session information, but rather a description of the state of the files that are open. It's main use is as a way to keep certain files as a project.
Open some files, edit their properties, etc. Save the session (Save As... is a better idea for a new session, otherwise it will save it as session.last). Close all files. Go to Open Session, and select the one that you just saved. All of the files should open, and be on the same line, with the same information as when you saved the session.