diff --git a/jib-gradle-plugin/src/integration-test/java/com/google/cloud/tools/jib/gradle/SingleProjectIntegrationTest.java b/jib-gradle-plugin/src/integration-test/java/com/google/cloud/tools/jib/gradle/SingleProjectIntegrationTest.java
index 0abd8d9c5f..6d76a42743 100644
--- a/jib-gradle-plugin/src/integration-test/java/com/google/cloud/tools/jib/gradle/SingleProjectIntegrationTest.java
+++ b/jib-gradle-plugin/src/integration-test/java/com/google/cloud/tools/jib/gradle/SingleProjectIntegrationTest.java
@@ -343,12 +343,11 @@ public void testDockerDaemon_simple_extraDirectoriesFiltering()
         new Command("docker", "run", "--rm", "--entrypoint=ls", targetImage, "-1R", "/extras")
             .run();
 
-    // No "bar" or "*.txt" files. Only copies the following:
-    //   /extras/cat.json
+    //   /extras/cat.txt
     //   /extras/foo
     //   /extras/sub/
     //   /extras/sub/a.json
-    assertThat(output).isEqualTo("/extras:\ncat.json\nfoo\nsub\n\n/extras/sub:\na.json\n");
+    assertThat(output).isEqualTo("/extras:\ncat.txt\nfoo\nsub\n\n/extras/sub:\na.json\n");
   }
 
   @Test
diff --git a/jib-gradle-plugin/src/integration-test/resources/gradle/projects/simple/build-extra-dirs-filtering.gradle b/jib-gradle-plugin/src/integration-test/resources/gradle/projects/simple/build-extra-dirs-filtering.gradle
index fad3d437e6..4e04624dac 100644
--- a/jib-gradle-plugin/src/integration-test/resources/gradle/projects/simple/build-extra-dirs-filtering.gradle
+++ b/jib-gradle-plugin/src/integration-test/resources/gradle/projects/simple/build-extra-dirs-filtering.gradle
@@ -22,13 +22,13 @@ jib {
       path {
         from = 'src/main/custom-extra-dir3'
         into = '/extras'
-        includes = ['**/*a*']
+        includes = ['**/*a*', '*.txt']
         excludes = ['**/*.txt']
       }
       path {
         from = 'src/main/custom-extra-dir4'
         into = '/extras'
-        includes = ['**/foo']
+        includes = ['foo']
       }
     }
   }
diff --git a/jib-maven-plugin/src/integration-test/java/com/google/cloud/tools/jib/maven/BuildDockerMojoIntegrationTest.java b/jib-maven-plugin/src/integration-test/java/com/google/cloud/tools/jib/maven/BuildDockerMojoIntegrationTest.java
index c0f8a97776..422c7e6f5d 100644
--- a/jib-maven-plugin/src/integration-test/java/com/google/cloud/tools/jib/maven/BuildDockerMojoIntegrationTest.java
+++ b/jib-maven-plugin/src/integration-test/java/com/google/cloud/tools/jib/maven/BuildDockerMojoIntegrationTest.java
@@ -116,12 +116,11 @@ public void testExecute_simple_extraDirectoriesFiltering()
         new Command("docker", "run", "--rm", "--entrypoint=ls", targetImage, "-1R", "/extras")
             .run();
 
-    // No "bar" or "*.txt" files. Only copies the following:
-    //   /extras/cat.json
+    //   /extras/cat.txt
     //   /extras/foo
     //   /extras/sub/
     //   /extras/sub/a.json
-    assertThat(output).isEqualTo("/extras:\ncat.json\nfoo\nsub\n\n/extras/sub:\na.json\n");
+    assertThat(output).isEqualTo("/extras:\ncat.txt\nfoo\nsub\n\n/extras/sub:\na.json\n");
   }
 
   @Test
diff --git a/jib-maven-plugin/src/test/resources/maven/projects/simple/pom-extra-dirs-filtering.xml b/jib-maven-plugin/src/test/resources/maven/projects/simple/pom-extra-dirs-filtering.xml
index 812d6d1af9..1a5da943fc 100644
--- a/jib-maven-plugin/src/test/resources/maven/projects/simple/pom-extra-dirs-filtering.xml
+++ b/jib-maven-plugin/src/test/resources/maven/projects/simple/pom-extra-dirs-filtering.xml
@@ -48,14 +48,14 @@
               <path>
                 <from>${project.basedir}/src/main/jib-custom-3</from>
                 <into>/extras</into>
-                <includes>**/*a*</includes>
+                <includes>**/*a*,*.txt</includes>
                 <excludes>**/*.txt</excludes>
               </path>
               <path>
                 <from>src/main/jib-custom-4</from>
                 <into>/extras</into>
                 <includes>
-                  <include>**/foo</include>
+                  <include>foo</include>
                 </includes>
               </path>
             </paths>
diff --git a/jib-plugins-common/src/main/java/com/google/cloud/tools/jib/plugins/common/JavaContainerBuilderHelper.java b/jib-plugins-common/src/main/java/com/google/cloud/tools/jib/plugins/common/JavaContainerBuilderHelper.java
index 30eb90a504..2b06d6aed7 100644
--- a/jib-plugins-common/src/main/java/com/google/cloud/tools/jib/plugins/common/JavaContainerBuilderHelper.java
+++ b/jib-plugins-common/src/main/java/com/google/cloud/tools/jib/plugins/common/JavaContainerBuilderHelper.java
@@ -75,12 +75,16 @@ public static FileEntriesLayer extraDirectoryLayerConfiguration(
     excludes
         .stream()
         .map(pattern -> FileSystems.getDefault().getPathMatcher("glob:" + pattern))
-        .forEach(pathMatcher -> walker.filter(path -> !pathMatcher.matches(path)));
+        .forEach(
+            pathMatcher ->
+                walker.filter(path -> !pathMatcher.matches(sourceDirectory.relativize(path))));
     // add an inclusion filter
     includes
         .stream()
         .map(pattern -> FileSystems.getDefault().getPathMatcher("glob:" + pattern))
-        .map(pathMatcher -> (Predicate<Path>) path -> pathMatcher.matches(path))
+        .map(
+            pathMatcher ->
+                (Predicate<Path>) path -> pathMatcher.matches(sourceDirectory.relativize(path)))
         .reduce((matches1, matches2) -> matches1.or(matches2))
         .ifPresent(walker::filter);
     // walk the source tree and add layer entries
diff --git a/jib-plugins-common/src/test/java/com/google/cloud/tools/jib/plugins/common/JavaContainerBuilderHelperTest.java b/jib-plugins-common/src/test/java/com/google/cloud/tools/jib/plugins/common/JavaContainerBuilderHelperTest.java
index 5df61ac0a4..5b45ec72c3 100644
--- a/jib-plugins-common/src/test/java/com/google/cloud/tools/jib/plugins/common/JavaContainerBuilderHelperTest.java
+++ b/jib-plugins-common/src/test/java/com/google/cloud/tools/jib/plugins/common/JavaContainerBuilderHelperTest.java
@@ -110,9 +110,7 @@ public void testExtraDirectoryLayerConfiguration_includes()
     assertThat(layerConfiguration.getEntries())
         .comparingElementsUsing(SOURCE_FILE_OF)
         .containsExactly(
-            extraFilesDirectory.resolve("a"),
-            extraFilesDirectory.resolve("a/b/bar"),
-            extraFilesDirectory.resolve("c/cat"));
+            extraFilesDirectory.resolve("a/b/bar"), extraFilesDirectory.resolve("c/cat"));
   }
 
   @Test
@@ -130,6 +128,7 @@ public void testExtraDirectoryLayerConfiguration_excludes()
     assertThat(layerConfiguration.getEntries())
         .comparingElementsUsing(SOURCE_FILE_OF)
         .containsExactly(
+            extraFilesDirectory.resolve("a"),
             extraFilesDirectory.resolve("a/b"),
             extraFilesDirectory.resolve("c"),
             extraFilesDirectory.resolve("foo"));
@@ -158,7 +157,7 @@ public void testExtraDirectoryLayerConfiguration_includesAndExcludes()
         JavaContainerBuilderHelper.extraDirectoryLayerConfiguration(
             extraFilesDirectory,
             AbsoluteUnixPath.get("/"),
-            Arrays.asList("**/*a*"),
+            Arrays.asList("**/*a*", "a"),
             Arrays.asList("**/*c*"),
             Collections.emptyMap(),
             (ignored1, ignored2) -> Instant.EPOCH);