diff --git a/build/org.eclipse.cdt.make.core/plugin.xml b/build/org.eclipse.cdt.make.core/plugin.xml
index 7455ac32a3e..14dddcd1ef2 100644
--- a/build/org.eclipse.cdt.make.core/plugin.xml
+++ b/build/org.eclipse.cdt.make.core/plugin.xml
@@ -15,7 +15,6 @@
    <requires>
       <import plugin="org.eclipse.core.resources"/>
       <import plugin="org.eclipse.cdt.core"/>
-      <import plugin="org.apache.xerces"/>
       <import plugin="org.eclipse.core.runtime.compatibility"/>
    </requires>
 
@@ -69,8 +68,8 @@
          name="%makeproject.name"
          point="org.eclipse.cdt.core.CProject">
       <cproject
-      		natureID="org.eclipse.cdt.make.core.makeNature"
-            class="org.eclipse.cdt.make.internal.core.MakeProject">
+            class="org.eclipse.cdt.make.internal.core.MakeProject"
+            natureID="org.eclipse.cdt.make.core.makeNature">
       </cproject>
    </extension>
    <extension
diff --git a/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/core/IMakeBuilderInfo.java b/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/core/IMakeBuilderInfo.java
index f7d8a1884c0..51fa6b1a0f5 100644
--- a/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/core/IMakeBuilderInfo.java
+++ b/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/core/IMakeBuilderInfo.java
@@ -49,6 +49,12 @@ public interface IMakeBuilderInfo {
 	String getFullBuildTarget();
 	void setFullBuildTarget(String target) throws CoreException;
 
+	String getCleanBuildTarget();
+	void setCleanBuildTarget(String target) throws CoreException;
+
+	boolean isCleanBuildEnabled();
+	void setCleanBuildEnable(boolean enabled) throws CoreException;
+	
 	String[] getErrorParsers();
 	void setErrorParsers(String[] parsers) throws CoreException;
 
diff --git a/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/core/MakeBuilder.java b/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/core/MakeBuilder.java
index dc3e60c34c4..e143deee225 100644
--- a/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/core/MakeBuilder.java
+++ b/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/core/MakeBuilder.java
@@ -36,10 +36,13 @@ import org.eclipse.core.resources.IncrementalProjectBuilder;
 import org.eclipse.core.runtime.CoreException;
 import org.eclipse.core.runtime.IPath;
 import org.eclipse.core.runtime.IProgressMonitor;
+import org.eclipse.core.runtime.IStatus;
 import org.eclipse.core.runtime.NullProgressMonitor;
 import org.eclipse.core.runtime.OperationCanceledException;
 import org.eclipse.core.runtime.QualifiedName;
+import org.eclipse.core.runtime.Status;
 import org.eclipse.core.runtime.SubProgressMonitor;
+import org.eclipse.core.runtime.jobs.Job;
 
 public class MakeBuilder extends ACBuilder {
 
@@ -97,7 +100,29 @@ public class MakeBuilder extends ACBuilder {
 		return getProject().getReferencedProjects();
 	}
 
-	private boolean invokeMake(int kind, IMakeBuilderInfo info, IProgressMonitor monitor) {
+	
+	protected void clean(IProgressMonitor monitor) throws CoreException {
+		final IMakeBuilderInfo info = MakeCorePlugin.createBuildInfo(getProject(), BUILDER_ID);
+		if (shouldBuild(CLEAN_BUILD, info)) {
+			Job backgroundJob = new Job("Standard Make Builder"){  //$NON-NLS-1$
+				/* (non-Javadoc)
+				 * @see org.eclipse.core.runtime.jobs.Job#run(org.eclipse.core.runtime.IProgressMonitor)
+				 */
+				protected IStatus run(IProgressMonitor monitor) {
+					invokeMake(CLEAN_BUILD, info, monitor);
+					IStatus returnStatus = Status.OK_STATUS;
+					return returnStatus;
+				}
+				
+				
+			};
+			
+			backgroundJob.setRule(getProject());
+			backgroundJob.schedule();
+		}
+	}
+	
+	protected boolean invokeMake(int kind, IMakeBuilderInfo info, IProgressMonitor monitor) {
 		boolean isClean = false;
 		IProject currProject = getProject();
 
@@ -128,7 +153,7 @@ public class MakeBuilder extends ACBuilder {
 					workingDirectory = currProject.getLocation();
 				}
 				String[] targets = getTargets(kind, info);
-				if (targets.length != 0 && targets[targets.length - 1].equals("clean")) //$NON-NLS-1$
+				if (targets.length != 0 && targets[targets.length - 1].equals(info.getCleanBuildTarget())) //$NON-NLS-1$
 					isClean = true;
 
 				String errMsg = null;
@@ -257,6 +282,8 @@ public class MakeBuilder extends ACBuilder {
 				return info.isIncrementalBuildEnabled();
 			case IncrementalProjectBuilder.FULL_BUILD :
 				return info.isFullBuildEnabled();
+			case IncrementalProjectBuilder.CLEAN_BUILD :
+				return info.isCleanBuildEnabled();
 		}
 		return true;
 	}
@@ -273,6 +300,9 @@ public class MakeBuilder extends ACBuilder {
 			case IncrementalProjectBuilder.FULL_BUILD :
 				targets = info.getFullBuildTarget();
 				break;
+			case IncrementalProjectBuilder.CLEAN_BUILD :
+				targets = info.getCleanBuildTarget();
+				break;
 		}
 		return makeArray(targets);
 	}
diff --git a/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/core/MakeCorePlugin.java b/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/core/MakeCorePlugin.java
index a1026eb03c1..f5665cc2c61 100644
--- a/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/core/MakeCorePlugin.java
+++ b/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/core/MakeCorePlugin.java
@@ -145,6 +145,8 @@ public class MakeCorePlugin extends Plugin {
 			info.setIncrementalBuildTarget("all"); //$NON-NLS-1$
 			info.setFullBuildEnable(true);
 			info.setFullBuildTarget("clean all"); //$NON-NLS-1$
+			info.setCleanBuildEnable(true);
+			info.setCleanBuildTarget("clean"); //$NON-NLS-1$
 			info.setErrorParsers(CCorePlugin.getDefault().getAllErrorParsersIDs());
 		} catch (CoreException e) {
 		}
diff --git a/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/core/MakeProjectNature.java b/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/core/MakeProjectNature.java
index 07d31716504..87e0cc257c8 100644
--- a/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/core/MakeProjectNature.java
+++ b/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/core/MakeProjectNature.java
@@ -116,6 +116,8 @@ public class MakeProjectNature implements IProjectNature {
 
 		projectInfo.setFullBuildEnable(info.isFullBuildEnabled());
 		projectInfo.setFullBuildTarget(info.getFullBuildTarget());
+		projectInfo.setCleanBuildEnable(info.isCleanBuildEnabled());
+		projectInfo.setCleanBuildTarget(info.getCleanBuildTarget());
 		projectInfo.setErrorParsers(info.getErrorParsers());
 	}
 
diff --git a/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/internal/core/BuildInfoFactory.java b/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/internal/core/BuildInfoFactory.java
index b5371ad4811..36e233aa5ec 100644
--- a/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/internal/core/BuildInfoFactory.java
+++ b/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/internal/core/BuildInfoFactory.java
@@ -46,7 +46,9 @@ public class BuildInfoFactory {
 	static final String BUILD_TARGET_AUTO = PREFIX + ".autoBuildTarget"; //$NON-NLS-1$
 	static final String BUILD_TARGET_INCREMENTAL = PREFIX + ".incrementalBuildTarget"; //$NON-NLS-1$
 	static final String BUILD_TARGET_FULL = PREFIX + ".fullBuildTarget"; //$NON-NLS-1$
+	static final String BUILD_TARGET_CLEAN = PREFIX + ".cleanBuildTarget"; //$NON-NLS-1$
 	static final String BUILD_FULL_ENABLED = PREFIX + ".enableFullBuild"; //$NON-NLS-1$
+	static final String BUILD_CLEAN_ENABLED = PREFIX + ".enableCleanBuild"; //$NON-NLS-1$
 	static final String BUILD_INCREMENTAL_ENABLED = PREFIX + ".enabledIncrementalBuild"; //$NON-NLS-1$
 	static final String BUILD_AUTO_ENABLED = PREFIX + ".enableAutoBuild"; //$NON-NLS-1$
 	static final String BUILD_ARGUMENTS = PREFIX + ".buildArguments"; //$NON-NLS-1$
@@ -145,6 +147,14 @@ public class BuildInfoFactory {
 			return getString(BUILD_TARGET_FULL);
 		}
 
+		public void setCleanBuildTarget(String target) throws CoreException {
+			putString(BUILD_TARGET_CLEAN, target);
+		}
+
+		public String getCleanBuildTarget() {
+			return getString(BUILD_TARGET_CLEAN);
+		}
+
 		public boolean getBoolean(String property) {
 			return Boolean.valueOf(getString(property)).booleanValue();
 		}
@@ -176,6 +186,14 @@ public class BuildInfoFactory {
 			return getBoolean(BUILD_FULL_ENABLED);
 		}
 
+		public void setCleanBuildEnable(boolean enabled) throws CoreException {
+			putString(BUILD_CLEAN_ENABLED, new Boolean(enabled).toString());
+		}
+
+		public boolean isCleanBuildEnabled() {
+			return getBoolean(BUILD_CLEAN_ENABLED);
+		}
+
 		public String getBuildArguments() {
 			return getString(BUILD_ARGUMENTS);
 		}
diff --git a/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/internal/core/MakeTarget.java b/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/internal/core/MakeTarget.java
index 46bf5e0f4cc..6854fc7bc20 100644
--- a/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/internal/core/MakeTarget.java
+++ b/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/internal/core/MakeTarget.java
@@ -143,6 +143,6 @@ public class MakeTarget implements IMakeTarget {
 	}
 
 	public String getBuildTarget() {
-		return target;
+		return target != null ? target : ""; //$NON-NLS-1$
 	}
 }
diff --git a/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/internal/core/ProjectTargets.java b/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/internal/core/ProjectTargets.java
index c43177a7041..c978ab0650f 100644
--- a/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/internal/core/ProjectTargets.java
+++ b/build/org.eclipse.cdt.make.core/src/org/eclipse/cdt/make/internal/core/ProjectTargets.java
@@ -3,8 +3,10 @@ package org.eclipse.cdt.make.internal.core;
 import java.io.File;
 import java.io.FileInputStream;
 import java.io.FileNotFoundException;
+import java.io.FileOutputStream;
 import java.io.IOException;
 import java.io.InputStream;
+import java.io.OutputStream;
 import java.util.ArrayList;
 import java.util.HashMap;
 import java.util.Iterator;
@@ -13,6 +15,12 @@ import java.util.Map;
 
 import javax.xml.parsers.DocumentBuilderFactory;
 import javax.xml.parsers.ParserConfigurationException;
+import javax.xml.transform.OutputKeys;
+import javax.xml.transform.Transformer;
+import javax.xml.transform.TransformerException;
+import javax.xml.transform.TransformerFactory;
+import javax.xml.transform.dom.DOMSource;
+import javax.xml.transform.stream.StreamResult;
 
 import org.eclipse.cdt.core.CCorePlugin;
 import org.eclipse.cdt.core.ICDescriptor;
@@ -45,7 +53,8 @@ public class ProjectTargets {
 	private static final String TARGET_USE_DEFAULT_CMD = "useDefaultCommand"; //$NON-NLS-1$
 	private static final String TARGET_ARGUMENTS = "buildArguments"; //$NON-NLS-1$
 	private static final String TARGET_COMMAND = "buildCommand"; //$NON-NLS-1$
-	private static final String TARGET = "buidlTarget"; //$NON-NLS-1$
+	private static final String BAD_TARGET = "buidlTarget"; //$NON-NLS-1$
+	private static final String TARGET = "buildTarget"; //$NON-NLS-1$
 
 	private HashMap targetMap = new HashMap();
 
@@ -78,8 +87,9 @@ public class ProjectTargets {
 			extractMakeTargetsFromDocument(document, manager);
 			if (writeTargets) {
 				try {
-					saveTargets();
-				} catch (IOException e) {
+					Document doc = getAsXML();
+					translateDocumentToCDTProject(doc);
+				} catch (Exception e) {
 					targetFile = null;
 				}
 				if (targetFile != null) {
@@ -192,13 +202,17 @@ public class ProjectTargets {
 		targetElem.appendChild(elem);
 		elem.appendChild(doc.createTextNode(target.getBuildCommand().toString()));
 
-		elem = doc.createElement(TARGET_ARGUMENTS);
-		elem.appendChild(doc.createTextNode(target.getBuildArguments()));
-		targetElem.appendChild(elem);
+		if (target.getBuildArguments().length() > 0) {
+			elem = doc.createElement(TARGET_ARGUMENTS);
+			elem.appendChild(doc.createTextNode(target.getBuildArguments()));
+			targetElem.appendChild(elem);
+		}
 
-		elem = doc.createElement(TARGET);
-		elem.appendChild(doc.createTextNode(target.getBuildTarget()));
-		targetElem.appendChild(elem);
+		if (target.getBuildTarget().length() > 0) {
+			elem = doc.createElement(TARGET);
+			elem.appendChild(doc.createTextNode(target.getBuildTarget()));
+			targetElem.appendChild(elem);
+		}
 
 		elem = doc.createElement(TARGET_STOP_ON_ERROR);
 		elem.appendChild(doc.createTextNode(new Boolean(target.isStopOnError()).toString()));
@@ -211,19 +225,37 @@ public class ProjectTargets {
 	}
 
 	public void saveTargets() throws IOException {
+		Document doc = getAsXML();
+		//Historical method would save the output to the stream specified
+		//translateDocumentToOutputStream(doc, output);
 		try {
-			Document doc = getAsXML();
-			//Historical method would save the output to the stream specified
-			//translateDocumentToOutputStream(doc, output);
 			translateDocumentToCDTProject(doc);
-		} catch (CoreException ex) {
-			throw new IOException(ex.getMessage());
+		} catch (Exception e) {
+			IPath targetFilePath = MakeCorePlugin.getDefault().getStateLocation().append(project.getName()).addFileExtension(
+					TARGETS_EXT);
+			File targetFile = targetFilePath.toFile();
+			try {
+				saveTargets(doc, new FileOutputStream(targetFile));
+			} catch (FileNotFoundException e1) {
+			} catch (IOException e1) {
+			} catch (TransformerException e1) {
+			}
 		}
 	}
 
+	protected void saveTargets(Document doc, OutputStream output) throws IOException, TransformerException {
+		TransformerFactory factory = TransformerFactory.newInstance();
+		Transformer transformer;
+		transformer = factory.newTransformer();
+		transformer.setOutputProperty(OutputKeys.METHOD, "xml"); //$NON-NLS-1$
+		transformer.setOutputProperty(OutputKeys.INDENT, "yes"); //$NON-NLS-1$
+
+		DOMSource source = new DOMSource(doc);
+		StreamResult outputTarget = new StreamResult(output);
+		transformer.transform(source, outputTarget);
+	}
 	/**
-	 * This output method saves the information into the .cdtproject metadata
-	 * file.
+	 * This output method saves the information into the .cdtproject metadata file.
 	 * 
 	 * @param doc
 	 * @throws IOException
@@ -254,8 +286,7 @@ public class ProjectTargets {
 	}
 
 	/**
-	 * This method parses the .cdtproject file for the XML document describing
-	 * the build targets.
+	 * This method parses the .cdtproject file for the XML document describing the build targets.
 	 * 
 	 * @param input
 	 * @return
@@ -269,26 +300,24 @@ public class ProjectTargets {
 			descriptor = CCorePlugin.getDefault().getCProjectDescription(getProject());
 
 			rootElement = descriptor.getProjectData(MAKE_TARGET_KEY);
-		} catch ( ParserConfigurationException e) {
+		} catch (ParserConfigurationException e) {
 			return document;
-		} catch ( CoreException e) {
+		} catch (CoreException e) {
 			return document;
 		}
-		Element element = rootElement.getOwnerDocument().getDocumentElement();
 		NodeList list = rootElement.getChildNodes();
 		for (int i = 0; i < list.getLength(); i++) {
-			if ( list.item(i).getNodeType() == Node.ELEMENT_NODE) {
+			if (list.item(i).getNodeType() == Node.ELEMENT_NODE) {
 				Node appendNode = document.importNode(list.item(i), true);
 				document.appendChild(appendNode);
-				break; // show never have multiple <buildtargets>
+				break; // should never have multiple <buildtargets>
 			}
 		}
 		return document;
 	}
 
 	/**
-	 * This method parses the input stream for the XML document describing the
-	 * build targets.
+	 * This method parses the input stream for the XML document describing the build targets.
 	 * 
 	 * @param input
 	 * @return
@@ -304,8 +333,7 @@ public class ProjectTargets {
 	}
 
 	/**
-	 * Extract the make target information which is contained in the XML
-	 * Document
+	 * Extract the make target information which is contained in the XML Document
 	 * 
 	 * @param document
 	 */
@@ -344,6 +372,10 @@ public class ProjectTargets {
 						if (option != null) {
 							target.setBuildArguments(option);
 						}
+						option = getString(node, BAD_TARGET);
+						if (option != null) {
+							target.setBuildTarget(option);
+						}
 						option = getString(node, TARGET);
 						if (option != null) {
 							target.setBuildTarget(option);