diff --git a/java/ui/src/main/java/com/google/security/zynamics/bindiff/graph/layout/commands/GraphLayoutCalculator.java b/java/ui/src/main/java/com/google/security/zynamics/bindiff/graph/layout/commands/GraphLayoutCalculator.java
index 42a2caf8..a4500dd3 100644
--- a/java/ui/src/main/java/com/google/security/zynamics/bindiff/graph/layout/commands/GraphLayoutCalculator.java
+++ b/java/ui/src/main/java/com/google/security/zynamics/bindiff/graph/layout/commands/GraphLayoutCalculator.java
@@ -38,6 +38,7 @@
 import com.google.security.zynamics.zylib.yfileswrap.gui.zygraph.helpers.ProximityHelper;
 import com.google.security.zynamics.zylib.yfileswrap.gui.zygraph.layouters.ZyGraphLayouter;
 import com.google.security.zynamics.zylib.yfileswrap.gui.zygraph.nodes.ZyGraphNode;
+import java.lang.reflect.InvocationTargetException;
 import java.util.HashMap;
 import java.util.Map;
 import java.util.concurrent.CountDownLatch;
@@ -309,7 +310,7 @@ private void adoptSuperGraphLayout(final GraphLayout superLayout) {
   // internal layout threads!
   private void cancelLayoutCalculation() {
     if (superLayoutThread != null && superLayoutThread.isAlive()) {
-      superLayoutThread.stop();
+      threadStop(superLayoutThread);
       superLayoutThread = null;
 
       doneLatch.countDown();
@@ -317,7 +318,7 @@ private void cancelLayoutCalculation() {
 
     if (combinedLayoutThread != null && combinedLayoutThread.isAlive()) {
 
-      combinedLayoutThread.stop();
+      threadStop(combinedLayoutThread);
       combinedLayoutThread = null;
 
       doneLatch.countDown();
@@ -326,6 +327,22 @@ private void cancelLayoutCalculation() {
     setCanceled();
   }
 
+  private static void threadStop(Thread thread) {
+    // TODO: b/447223240 - clean up obsolete references to Thread.stop.
+    // Thread#stop has been deprecated since JDK 1.2. Starting in JDK 20 it always throws
+    // UnsupportedOperationException, and in JDK 26 the method has been removed.
+    try {
+      Thread.class.getMethod("stop").invoke(thread);
+    } catch (InvocationTargetException e) {
+      if (e.getCause() instanceof UnsupportedOperationException) {
+        throw (UnsupportedOperationException) e.getCause();
+      }
+      throw new UnsupportedOperationException(e);
+    } catch (ReflectiveOperationException e) {
+      throw new UnsupportedOperationException(e);
+    }
+  }
+
   private CanonicMultiStageLayouter createSecondThreadLayouter(
       final CanonicMultiStageLayouter layouter, final GraphLayoutSettings settings) {
     if (layouter instanceof CircularLayouter) {
diff --git a/java/zylib/src/main/java/com/google/security/zynamics/zylib/gui/ProgressDialogs/CEndlessHelperThread.java b/java/zylib/src/main/java/com/google/security/zynamics/zylib/gui/ProgressDialogs/CEndlessHelperThread.java
index e8598741..678c4f1f 100644
--- a/java/zylib/src/main/java/com/google/security/zynamics/zylib/gui/ProgressDialogs/CEndlessHelperThread.java
+++ b/java/zylib/src/main/java/com/google/security/zynamics/zylib/gui/ProgressDialogs/CEndlessHelperThread.java
@@ -15,6 +15,7 @@
 package com.google.security.zynamics.zylib.gui.ProgressDialogs;
 
 import com.google.security.zynamics.zylib.general.ListenerProvider;
+import java.lang.reflect.InvocationTargetException;
 
 /**
  * This class is a helper thread to use with the CEndlessProgressDialog class. To use this class do
@@ -48,7 +49,23 @@ protected void finish() {
     // within
     // the threads
     // run routine, and when true, return from thread function)
-    stop();
+    threadStop(this);
+  }
+
+  private static void threadStop(Thread thread) {
+    // TODO: b/447223240 - clean up obsolete references to Thread.stop.
+    // Thread#stop has been deprecated since JDK 1.2. Starting in JDK 20 it always throws
+    // UnsupportedOperationException, and in JDK 26 the method has been removed.
+    try {
+      Thread.class.getMethod("stop").invoke(thread);
+    } catch (InvocationTargetException e) {
+      if (e.getCause() instanceof UnsupportedOperationException) {
+        throw (UnsupportedOperationException) e.getCause();
+      }
+      throw new UnsupportedOperationException(e);
+    } catch (ReflectiveOperationException e) {
+      throw new UnsupportedOperationException(e);
+    }
   }
 
   protected abstract void runExpensiveCommand() throws Exception;
diff --git a/java/zylib/src/main/java/com/google/security/zynamics/zylib/gui/ProgressDialogs/CStandardHelperThread.java b/java/zylib/src/main/java/com/google/security/zynamics/zylib/gui/ProgressDialogs/CStandardHelperThread.java
index bf54f730..ba1c77a4 100644
--- a/java/zylib/src/main/java/com/google/security/zynamics/zylib/gui/ProgressDialogs/CStandardHelperThread.java
+++ b/java/zylib/src/main/java/com/google/security/zynamics/zylib/gui/ProgressDialogs/CStandardHelperThread.java
@@ -15,6 +15,7 @@
 package com.google.security.zynamics.zylib.gui.ProgressDialogs;
 
 import com.google.security.zynamics.zylib.general.ListenerProvider;
+import java.lang.reflect.InvocationTargetException;
 
 /**
  * This class is a helper thread to use with the CEndlessProgressDialog class. To use this class do
@@ -42,7 +43,23 @@ private void notifyListeners() {
   protected void finish() {
     notifyListeners();
 
-    stop();
+    threadStop(this);
+  }
+
+  private static void threadStop(Thread thread) {
+    // TODO: b/447223240 - clean up obsolete references to Thread.stop.
+    // Thread#stop has been deprecated since JDK 1.2. Starting in JDK 20 it always throws
+    // UnsupportedOperationException, and in JDK 26 the method has been removed.
+    try {
+      Thread.class.getMethod("stop").invoke(thread);
+    } catch (InvocationTargetException e) {
+      if (e.getCause() instanceof UnsupportedOperationException) {
+        throw (UnsupportedOperationException) e.getCause();
+      }
+      throw new UnsupportedOperationException(e);
+    } catch (ReflectiveOperationException e) {
+      throw new UnsupportedOperationException(e);
+    }
   }
 
   protected abstract void runExpensiveCommand() throws Exception;