diff --git a/org.eclipse.jgit.test/tst-rsrc/org/eclipse/jgit/diff/A3.patch b/org.eclipse.jgit.test/tst-rsrc/org/eclipse/jgit/diff/A3.patch
new file mode 100644
index 000000000..ac63d9113
--- /dev/null
+++ b/org.eclipse.jgit.test/tst-rsrc/org/eclipse/jgit/diff/A3.patch
@@ -0,0 +1,3 @@
+diff --git a/A3 b/A3
+new file mode 100644
+index 0000000..de98044
\ No newline at end of file
diff --git a/org.eclipse.jgit.test/tst-rsrc/org/eclipse/jgit/diff/A3_PostImage b/org.eclipse.jgit.test/tst-rsrc/org/eclipse/jgit/diff/A3_PostImage
new file mode 100644
index 000000000..e69de29bb
diff --git a/org.eclipse.jgit.test/tst/org/eclipse/jgit/api/ApplyCommandTest.java b/org.eclipse.jgit.test/tst/org/eclipse/jgit/api/ApplyCommandTest.java
index 1dd329a9e..714a54c90 100644
--- a/org.eclipse.jgit.test/tst/org/eclipse/jgit/api/ApplyCommandTest.java
+++ b/org.eclipse.jgit.test/tst/org/eclipse/jgit/api/ApplyCommandTest.java
@@ -110,6 +110,16 @@ public class ApplyCommandTest extends RepositoryTestCase {
 				b.getString(0, b.size(), false));
 	}
 
+	@Test
+	public void testAddA3() throws Exception {
+		ApplyResult result = init("A3", false, true);
+		assertEquals(1, result.getUpdatedFiles().size());
+		assertEquals(new File(db.getWorkTree(), "A3"),
+				result.getUpdatedFiles().get(0));
+		checkFile(new File(db.getWorkTree(), "A3"),
+				b.getString(0, b.size(), false));
+	}
+
 	@Test
 	public void testAddA1Sub() throws Exception {
 		ApplyResult result = init("A1_sub", false, false);
diff --git a/org.eclipse.jgit/src/org/eclipse/jgit/api/ApplyCommand.java b/org.eclipse.jgit/src/org/eclipse/jgit/api/ApplyCommand.java
index c6f3c671a..38e544452 100644
--- a/org.eclipse.jgit/src/org/eclipse/jgit/api/ApplyCommand.java
+++ b/org.eclipse.jgit/src/org/eclipse/jgit/api/ApplyCommand.java
@@ -279,9 +279,13 @@ public class ApplyCommand extends GitCommand<ApplyResult> {
 	}
 
 	private boolean isNoNewlineAtEndOfFile(FileHeader fh) {
-		HunkHeader lastHunk = fh.getHunks().get(fh.getHunks().size() - 1);
+		List<? extends HunkHeader> hunks = fh.getHunks();
+		if (hunks == null || hunks.isEmpty()) {
+			return false;
+		}
+		HunkHeader lastHunk = hunks.get(hunks.size() - 1);
 		RawText lhrt = new RawText(lastHunk.getBuffer());
-		return lhrt.getString(lhrt.size() - 1).equals(
-				"\\ No newline at end of file"); //$NON-NLS-1$
+		return lhrt.getString(lhrt.size() - 1)
+				.equals("\\ No newline at end of file"); //$NON-NLS-1$
 	}
 }