### Eclipse Workspace Patch 1.0
#P org.eclipse.jdt.core
Index: model/org/eclipse/jdt/core/IJavaProject.java
===================================================================
RCS file: /cvsroot/eclipse/org.eclipse.jdt.core/model/org/eclipse/jdt/core/IJavaProject.java,v
retrieving revision 1.105
diff -u -r1.105 IJavaProject.java
--- model/org/eclipse/jdt/core/IJavaProject.java	4 Dec 2010 02:42:13 -0000	1.105
+++ model/org/eclipse/jdt/core/IJavaProject.java	28 Feb 2011 07:34:19 -0000
@@ -504,7 +504,9 @@
 	 * does not include package fragment roots in other projects referenced
 	 * on this project's classpath.
 	 *
-	 * <p>NOTE: This is equivalent to <code>getChildren()</code>.
+	 * <p>The package fragment roots appear in the order they are defined 
+	 * by the classpath.
+	 * </p>
 	 *
 	 * @return all of the  package fragment roots contained in this
 	 * project, identified on this project's resolved classpath
Index: model/org/eclipse/jdt/internal/core/JavaProject.java
===================================================================
RCS file: /cvsroot/eclipse/org.eclipse.jdt.core/model/org/eclipse/jdt/internal/core/JavaProject.java,v
retrieving revision 1.443
diff -u -r1.443 JavaProject.java
--- model/org/eclipse/jdt/internal/core/JavaProject.java	18 Feb 2011 10:03:13 -0000	1.443
+++ model/org/eclipse/jdt/internal/core/JavaProject.java	28 Feb 2011 07:34:20 -0000
@@ -1800,19 +1800,10 @@
 	 */
 	public IPackageFragmentRoot[] getPackageFragmentRoots()
 		throws JavaModelException {
-
-		Object[] children;
-		int length;
-		IPackageFragmentRoot[] roots;
-
-		System.arraycopy(
-			children = getChildren(),
-			0,
-			roots = new IPackageFragmentRoot[length = children.length],
-			0,
-			length);
-
-		return roots;
+		// https://bugs.eclipse.org/bugs/show_bug.cgi?id=338006
+		// This will ensure that the order is consistent with other methods such as 
+		// IJavaProject#getAllPackageFragmentRoots()
+		return computePackageFragmentRoots(getResolvedClasspath(), false, null);
 	}
 
 	/**