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Build ID: I20090313-0100 Steps To Reproduce: [Step1: In your run-time workspace] Create a Hello World ANSI C Project with Linux GCC. Turn on -nostdinc at project level in Debug and at the folder level in Release. Save the project and get out. [Step2: In your development workspace] Comment out the -nostdinc option in org.eclipse.cdt.managedbuilder.gnu.ui/plugin.xml Open your run-time workspace again. [Step3: In your run-time workspace] Open the project you created. -nostdinc doesn't show up in "All options:" at either project or folder level. BUT If you mark the option resourceFilter="project" in Step2 instead of commenting it out, You'll see that "-nostdinc" still show up in "All options:" at folder level in Release. CDT behavior in these two cases seems inconsistent. Since the option GUI itself is gone, we can no longer turn it off, so, in my opinion, "-nostdinc" should disappear from "All options:" in this case as well. More information: