diff --git a/spring-boot-project/spring-boot/src/main/java/org/springframework/boot/logging/logback/SpringBootJoranConfigurator.java b/spring-boot-project/spring-boot/src/main/java/org/springframework/boot/logging/logback/SpringBootJoranConfigurator.java
index 6eadc9596d6..39d36d299eb 100644
--- a/spring-boot-project/spring-boot/src/main/java/org/springframework/boot/logging/logback/SpringBootJoranConfigurator.java
+++ b/spring-boot-project/spring-boot/src/main/java/org/springframework/boot/logging/logback/SpringBootJoranConfigurator.java
@@ -42,6 +42,7 @@ import ch.qos.logback.core.joran.spi.RuleStore;
 import ch.qos.logback.core.joran.util.PropertySetter;
 import ch.qos.logback.core.joran.util.beans.BeanDescription;
 import ch.qos.logback.core.model.ComponentModel;
+import ch.qos.logback.core.model.IncludeModel;
 import ch.qos.logback.core.model.Model;
 import ch.qos.logback.core.model.ModelUtil;
 import ch.qos.logback.core.model.processor.DefaultProcessor;
@@ -326,6 +327,7 @@ class SpringBootJoranConfigurator extends JoranConfigurator {
 				try (ObjectInputStream input = new ObjectInputStream(modelInput)) {
 					Model model = (Model) input.readObject();
 					ModelUtil.resetForReuse(model);
+					markIncludesAsHandled(model);
 					return model;
 				}
 			}
@@ -335,6 +337,15 @@ class SpringBootJoranConfigurator extends JoranConfigurator {
 			}
 		}
 
+		private void markIncludesAsHandled(Model model) {
+			if (model instanceof IncludeModel) {
+				model.markAsHandled();
+			}
+			for (Model submodel : model.getSubModels()) {
+				markIncludesAsHandled(submodel);
+			}
+		}
+
 	}
 
 	private static final class PatternRules {