Comment 3 for bug 551059

MD has two similar sounding features:

1. Makefile generation - generates makefiles from the project files. These can be autofoo based or simple makefiles

2. Makefile integration - This allows you to associate things like 'list of source files', 'list of references' etc with specific makefile variables (in Makefile you specify). When this is enabled, when loading a project file, md will use those makefile variables to get the list of file/references instead of using the list in the project file. When saving the project, it will *update* the specified makefile variables with the updated lists. No makefiles/autofoo is generated for this.

David probably tried the first one, and the bug seems to be talking about the second one.
HTH.