Bug 63883 Cannot configure option for enabling/disabling exclusion filters or custom output folders on a per project basis
Build M9 JDT/Core supports setting enablement for exclusion patterns and custom output folders on a per project basis. This isn't surfaced in the UI. There is only a global flag in workspace preferences.
org.eclipse.jdt.ui/ui/org/eclipse/jdt/internal/ui/preferences/CompilerConfigurationBlock.java
private Composite createBuildPathTabContent(TabFolder folder) {
		String[] abortIgnoreValues= new String[] { ABORT, IGNORE };
		String[] cleanIgnoreValues= new String[] { CLEAN, IGNORE };
		
		String[] errorWarning= new String[] { ERROR, WARNING };
		
		String[] errorWarningLabels= new String[] {
			PreferencesMessages.getString("CompilerConfigurationBlock.error"),  
			PreferencesMessages.getString("CompilerConfigurationBlock.warning") 
		};
		
		int nColumns= 3;
		
		GridLayout layout= new GridLayout();
		layout.numColumns= nColumns;
		Composite othersComposite= new Composite(folder, SWT.NULL);
		othersComposite.setLayout(layout);
		
		Label description= new Label(othersComposite, SWT.WRAP);
		description.setText(PreferencesMessages.getString("CompilerConfigurationBlock.build_warnings.description")); 
		GridData gd= new GridData(GridData.FILL_HORIZONTAL | GridData.GRAB_HORIZONTAL);
		gd.horizontalSpan= nColumns;
		description.setLayoutData(gd);
				
		String label= PreferencesMessages.getString("CompilerConfigurationBlock.pb_incomplete_build_path.label"); 
		addComboBox(othersComposite, label, PREF_PB_INCOMPLETE_BUILDPATH, errorWarning, errorWarningLabels, 0);	
		
		label= PreferencesMessages.getString("CompilerConfigurationBlock.pb_build_path_cycles.label"); 
		addComboBox(othersComposite, label, PREF_PB_CIRCULAR_BUILDPATH, errorWarning, errorWarningLabels, 0);
		label= PreferencesMessages.getString("CompilerConfigurationBlock.pb_duplicate_resources.label");