Ah, I see now that I have to use a slightly different command line than what I have been using for composite projects. That might explain it.
My project is a composite project, which is how I have it saved on my local machine. I noticed that on the other machine that it isn't opened as a composite project. Is this setting not saved with the project? The new project showed the new environment I added once I changed it to being a composite project on the remote machine.
While I can't comment on the specifics of the missing Environment, I did want to point out (Note: I'm using version 1.7) that when you save a project as a composite project it creates the new composite project directory and all it's contents, but leaves the original project xml file in place. Thus you have to delete the old project file yourself, including from your source control.
If you converted your project to composite, edited and saved it, and then reopened the original non-composite version, this would not contain the edits. This is just a scenario that may of happened but would cause the symptoms you describe.
