diff --git a/spring-boot-project/spring-boot-autoconfigure/src/main/java/org/springframework/boot/autoconfigure/quartz/QuartzDataSourceScriptDatabaseInitializer.java b/spring-boot-project/spring-boot-autoconfigure/src/main/java/org/springframework/boot/autoconfigure/quartz/QuartzDataSourceScriptDatabaseInitializer.java
index 8fca4af475..23f46d677c 100644
--- a/spring-boot-project/spring-boot-autoconfigure/src/main/java/org/springframework/boot/autoconfigure/quartz/QuartzDataSourceScriptDatabaseInitializer.java
+++ b/spring-boot-project/spring-boot-autoconfigure/src/main/java/org/springframework/boot/autoconfigure/quartz/QuartzDataSourceScriptDatabaseInitializer.java
@@ -24,6 +24,8 @@ import org.springframework.boot.jdbc.DatabaseDriver;
 import org.springframework.boot.jdbc.init.DataSourceScriptDatabaseInitializer;
 import org.springframework.boot.jdbc.init.PlatformPlaceholderDatabaseDriverResolver;
 import org.springframework.boot.sql.init.DatabaseInitializationSettings;
+import org.springframework.jdbc.datasource.init.ResourceDatabasePopulator;
+import org.springframework.util.ObjectUtils;
 import org.springframework.util.StringUtils;
 
 /**
@@ -37,6 +39,8 @@ import org.springframework.util.StringUtils;
  */
 public class QuartzDataSourceScriptDatabaseInitializer extends DataSourceScriptDatabaseInitializer {
 
+	private final List<String> commentPrefixes;
+
 	/**
 	 * Create a new {@link QuartzDataSourceScriptDatabaseInitializer} instance.
 	 * @param dataSource the Quartz Scheduler data source
@@ -44,7 +48,7 @@ public class QuartzDataSourceScriptDatabaseInitializer extends DataSourceScriptD
 	 * @see #getSettings
 	 */
 	public QuartzDataSourceScriptDatabaseInitializer(DataSource dataSource, QuartzProperties properties) {
-		this(dataSource, getSettings(dataSource, properties));
+		this(dataSource, getSettings(dataSource, properties), properties.getJdbc().getCommentPrefix());
 	}
 
 	/**
@@ -54,7 +58,20 @@ public class QuartzDataSourceScriptDatabaseInitializer extends DataSourceScriptD
 	 * @see #getSettings
 	 */
 	public QuartzDataSourceScriptDatabaseInitializer(DataSource dataSource, DatabaseInitializationSettings settings) {
+		this(dataSource, settings, null);
+	}
+
+	private QuartzDataSourceScriptDatabaseInitializer(DataSource dataSource, DatabaseInitializationSettings settings,
+			List<String> commentPrefixes) {
 		super(dataSource, settings);
+		this.commentPrefixes = commentPrefixes;
+	}
+
+	@Override
+	protected void customize(ResourceDatabasePopulator populator) {
+		if (!ObjectUtils.isEmpty(this.commentPrefixes)) {
+			populator.setCommentPrefixes(this.commentPrefixes.toArray(new String[0]));
+		}
 	}
 
 	/**
diff --git a/spring-boot-project/spring-boot-autoconfigure/src/test/java/org/springframework/boot/autoconfigure/quartz/QuartzDataSourceScriptDatabaseInitializerTests.java b/spring-boot-project/spring-boot-autoconfigure/src/test/java/org/springframework/boot/autoconfigure/quartz/QuartzDataSourceScriptDatabaseInitializerTests.java
index 16b2d56ff9..dcfc5db18e 100644
--- a/spring-boot-project/spring-boot-autoconfigure/src/test/java/org/springframework/boot/autoconfigure/quartz/QuartzDataSourceScriptDatabaseInitializerTests.java
+++ b/spring-boot-project/spring-boot-autoconfigure/src/test/java/org/springframework/boot/autoconfigure/quartz/QuartzDataSourceScriptDatabaseInitializerTests.java
@@ -16,14 +16,18 @@
 
 package org.springframework.boot.autoconfigure.quartz;
 
+import java.util.Arrays;
+
 import javax.sql.DataSource;
 
 import org.junit.jupiter.api.Test;
 
 import org.springframework.boot.sql.init.DatabaseInitializationSettings;
+import org.springframework.jdbc.datasource.init.ResourceDatabasePopulator;
 
 import static org.assertj.core.api.Assertions.assertThat;
 import static org.mockito.Mockito.mock;
+import static org.mockito.Mockito.verify;
 import static org.mockito.Mockito.verifyNoInteractions;
 
 /**
@@ -45,4 +49,16 @@ class QuartzDataSourceScriptDatabaseInitializerTests {
 		verifyNoInteractions(dataSource);
 	}
 
+	@Test
+	void customizeSetCommentPrefixes() {
+		QuartzProperties properties = new QuartzProperties();
+		properties.getJdbc().setPlatform("test");
+		properties.getJdbc().setCommentPrefix(Arrays.asList("##", "--"));
+		QuartzDataSourceScriptDatabaseInitializer initializer = new QuartzDataSourceScriptDatabaseInitializer(
+				mock(DataSource.class), properties);
+		ResourceDatabasePopulator populator = mock(ResourceDatabasePopulator.class);
+		initializer.customize(populator);
+		verify(populator).setCommentPrefixes("##", "--");
+	}
+
 }
diff --git a/spring-boot-project/spring-boot/src/main/java/org/springframework/boot/jdbc/init/DataSourceScriptDatabaseInitializer.java b/spring-boot-project/spring-boot/src/main/java/org/springframework/boot/jdbc/init/DataSourceScriptDatabaseInitializer.java
index 043bae2575..4ca160c470 100644
--- a/spring-boot-project/spring-boot/src/main/java/org/springframework/boot/jdbc/init/DataSourceScriptDatabaseInitializer.java
+++ b/spring-boot-project/spring-boot/src/main/java/org/springframework/boot/jdbc/init/DataSourceScriptDatabaseInitializer.java
@@ -86,7 +86,17 @@ public class DataSourceScriptDatabaseInitializer extends AbstractScriptDatabaseI
 		for (Resource resource : resources) {
 			populator.addScript(resource);
 		}
+		customize(populator);
 		DatabasePopulatorUtils.execute(populator, this.dataSource);
 	}
 
+	/**
+	 * Customize the {@link ResourceDatabasePopulator}.
+	 * @param populator the configured database populator
+	 * @since 2.6.2
+	 */
+	protected void customize(ResourceDatabasePopulator populator) {
+
+	}
+
 }
diff --git a/spring-boot-project/spring-boot/src/test/java/org/springframework/boot/jdbc/init/DataSourceScriptDatabaseInitializerTests.java b/spring-boot-project/spring-boot/src/test/java/org/springframework/boot/jdbc/init/DataSourceScriptDatabaseInitializerTests.java
index 38b8f3694c..475a846b1d 100644
--- a/spring-boot-project/spring-boot/src/test/java/org/springframework/boot/jdbc/init/DataSourceScriptDatabaseInitializerTests.java
+++ b/spring-boot-project/spring-boot/src/test/java/org/springframework/boot/jdbc/init/DataSourceScriptDatabaseInitializerTests.java
@@ -16,6 +16,7 @@
 
 package org.springframework.boot.jdbc.init;
 
+import java.util.Collections;
 import java.util.UUID;
 
 import javax.sql.DataSource;
@@ -29,8 +30,11 @@ import org.springframework.boot.sql.init.AbstractScriptDatabaseInitializerTests;
 import org.springframework.boot.sql.init.DatabaseInitializationSettings;
 import org.springframework.boot.testsupport.BuildOutput;
 import org.springframework.jdbc.core.JdbcTemplate;
+import org.springframework.jdbc.datasource.init.ResourceDatabasePopulator;
+import org.springframework.jdbc.datasource.init.ScriptStatementFailedException;
 
 import static org.assertj.core.api.Assertions.assertThat;
+import static org.assertj.core.api.Assertions.assertThatThrownBy;
 
 /**
  * Tests for {@link DataSourceScriptDatabaseInitializer}.
@@ -61,6 +65,22 @@ class DataSourceScriptDatabaseInitializerTests
 		assertThat(initializer.isEmbeddedDatabase()).isFalse();
 	}
 
+	@Test
+	void whenCustomizeIsOverriddenThenDatabasePopulatorIsConfiguredAccordingly() {
+		DatabaseInitializationSettings settings = new DatabaseInitializationSettings();
+		settings.setContinueOnError(true);
+		settings.setDataLocations(Collections.singletonList("data.sql"));
+		DataSourceScriptDatabaseInitializer initializer = new DataSourceScriptDatabaseInitializer(
+				this.embeddedDataSource, settings) {
+			@Override
+			protected void customize(ResourceDatabasePopulator populator) {
+				assertThat(populator).hasFieldOrPropertyWithValue("continueOnError", true);
+				populator.setContinueOnError(false);
+			}
+		};
+		assertThatThrownBy(initializer::initializeDatabase).isInstanceOf(ScriptStatementFailedException.class);
+	}
+
 	@Override
 	protected DataSourceScriptDatabaseInitializer createEmbeddedDatabaseInitializer(
 			DatabaseInitializationSettings settings) {