Since I\'m more comfortable using Eclipse, I thought I\'d try converting my project from Visual Studio. Yesterday I tried a very simple little test. No matter what I try,
I also had the problem of multiple target patterns reported by make when using eclipse on windows/cygwin. I solved the problem as suggested above by using only relative paths. I didn't realize that I had absolute paths, but when I specified an include directory using the project directory, eclipse expanded it into the full path.
For instance, if you add a path relative to the workspace, eclipse generates ""${workspace_loc:/include}"" which will expand to something starting with "c:\". This is why it was happening in my case.
I simply replaced the complex string above with "../../include" and it solved my problem.