diff --git a/dhis-2/dhis-services/dhis-service-dxf2/src/main/java/org/hisp/dhis/dxf2/deprecated/tracker/event/AbstractEventService.java b/dhis-2/dhis-services/dhis-service-dxf2/src/main/java/org/hisp/dhis/dxf2/deprecated/tracker/event/AbstractEventService.java
index ad9acb7c3ca8..dcd11558b0a3 100644
--- a/dhis-2/dhis-services/dhis-service-dxf2/src/main/java/org/hisp/dhis/dxf2/deprecated/tracker/event/AbstractEventService.java
+++ b/dhis-2/dhis-services/dhis-service-dxf2/src/main/java/org/hisp/dhis/dxf2/deprecated/tracker/event/AbstractEventService.java
@@ -790,6 +790,15 @@ public ImportSummary updateEventDataValues(
             // data elements
             .collect(Collectors.toSet());
 
+    for (DataValue dataValue : event.getDataValues()) {
+      // data element has been deleted
+      if (eventDataValues.stream()
+          .noneMatch(e -> e.getDataElement().equals(dataValue.getDataElement()))) {
+        EventDataValue eventDataValue = new EventDataValue();
+        eventDataValue.setDataElement(dataValue.getDataElement());
+        eventDataValues.add(eventDataValue);
+      }
+    }
     return eventManager.updateEventDataValues(event, eventDataValues, context);
   }
 
diff --git a/dhis-2/dhis-services/dhis-service-dxf2/src/main/java/org/hisp/dhis/dxf2/deprecated/tracker/event/persistence/DefaultEventPersistenceService.java b/dhis-2/dhis-services/dhis-service-dxf2/src/main/java/org/hisp/dhis/dxf2/deprecated/tracker/event/persistence/DefaultEventPersistenceService.java
index aa4b0b11d4af..b2a490f9e1db 100644
--- a/dhis-2/dhis-services/dhis-service-dxf2/src/main/java/org/hisp/dhis/dxf2/deprecated/tracker/event/persistence/DefaultEventPersistenceService.java
+++ b/dhis-2/dhis-services/dhis-service-dxf2/src/main/java/org/hisp/dhis/dxf2/deprecated/tracker/event/persistence/DefaultEventPersistenceService.java
@@ -128,34 +128,55 @@ public void updateEventDataValues(
       org.hisp.dhis.dxf2.deprecated.tracker.event.Event event,
       WorkContext workContext)
       throws JsonProcessingException {
-
-    String uid = de.getDataElement();
-    de.setDataElement(null); // de uid is used as a key in the json, so we don't need it here
-
-    String query =
-        """
-                UPDATE event SET
-                eventdatavalues= (CASE
-                        WHEN eventdatavalues->:de IS NOT NULL
-                          THEN jsonb_set(eventdatavalues, '{%1$s}', (eventdatavalues->:de) || '%2$s')
-                        WHEN eventdatavalues->:de IS NULL
-                          THEN jsonb_insert(eventdatavalues, '{%1$s}', '%2$s')
-                 END) ,
-                lastupdated = current_timestamp,
-                lastupdatedbyuserinfo = CAST(:lastupdatedbyuserinfo as jsonb)
-                 WHERE  uid = :event
-                 """
-            .formatted(uid, mapper.writeValueAsString(de));
-
-    entityManager
-        .createNativeQuery(query)
-        .setParameter("event", event.getEvent())
-        .setParameter("de", uid)
-        .setParameter(
-            "lastupdatedbyuserinfo",
-            mapper.writeValueAsString(
-                UserInfoSnapshot.from(workContext.getImportOptions().getUser())))
-        .executeUpdate();
+    String query;
+    String deUid = de.getDataElement();
+
+    if (de.getValue() == null) {
+      // delete
+      query =
+          String.format(
+              " UPDATE event SET eventdatavalues = eventdatavalues\\:\\:jsonb - '%1$s'"
+                  + ", lastupdated = current_timestamp"
+                  + ", lastupdatedbyuserinfo = CAST(:lastupdatedbyuserinfo as jsonb) "
+                  + " WHERE  uid = :event",
+              deUid);
+
+      entityManager
+          .createNativeQuery(query)
+          .setParameter("event", event.getEvent())
+          .setParameter(
+              "lastupdatedbyuserinfo",
+              mapper.writeValueAsString(
+                  UserInfoSnapshot.from(workContext.getImportOptions().getUser())))
+          .executeUpdate();
+    } else {
+      // merge
+      de.setDataElement(null); // de uid is used as a key in the json, so we don't need it here
+
+      query =
+          String.format(
+              " UPDATE event SET"
+                  + " eventdatavalues= (CASE"
+                  + " WHEN eventdatavalues->:de IS NOT NULL"
+                  + " THEN jsonb_set(eventdatavalues, '{%1$s}', (eventdatavalues->:de) || '%2$s')"
+                  + " WHEN eventdatavalues->:de IS NULL"
+                  + " THEN jsonb_insert(eventdatavalues, '{%1$s}', '%2$s')"
+                  + " END) ,"
+                  + " lastupdated = current_timestamp"
+                  + " ,lastupdatedbyuserinfo = CAST(:lastupdatedbyuserinfo as jsonb)"
+                  + " WHERE  uid = :event",
+              deUid, mapper.writeValueAsString(de));
+
+      entityManager
+          .createNativeQuery(query)
+          .setParameter("event", event.getEvent())
+          .setParameter("de", deUid)
+          .setParameter(
+              "lastupdatedbyuserinfo",
+              mapper.writeValueAsString(
+                  UserInfoSnapshot.from(workContext.getImportOptions().getUser())))
+          .executeUpdate();
+    }
   }
 
   @Override
diff --git a/dhis-2/dhis-test-integration/src/test/java/org/hisp/dhis/dxf2/deprecated/tracker/EventImportTest.java b/dhis-2/dhis-test-integration/src/test/java/org/hisp/dhis/dxf2/deprecated/tracker/EventImportTest.java
index 20406468b1e7..3fc59e8e5e8e 100644
--- a/dhis-2/dhis-test-integration/src/test/java/org/hisp/dhis/dxf2/deprecated/tracker/EventImportTest.java
+++ b/dhis-2/dhis-test-integration/src/test/java/org/hisp/dhis/dxf2/deprecated/tracker/EventImportTest.java
@@ -336,6 +336,56 @@ void shouldUpdateEventDataValues_whenAddingDataValuesToEvent() throws IOExceptio
     assertTrue(trackedEntityInstance.getLastUpdated().compareTo(toIso8601NoTz(now)) > 0);
   }
 
+  @Test
+  void shouldDeleteDataElementFromEventDataValues_whenSetDataValueToNull() throws IOException {
+    InputStream is =
+        createEventJsonInputStream(
+            programB.getUid(),
+            programStageB.getUid(),
+            organisationUnitB.getUid(),
+            trackedEntityInstanceMaleA.getTrackedEntityInstance(),
+            dataElementB,
+            "10");
+    String uid = eventService.addEventsJson(is, null).getImportSummaries().get(0).getReference();
+
+    org.hisp.dhis.dxf2.deprecated.tracker.event.Event event = createEvent(uid);
+
+    Event ev = programStageInstanceService.getEvent(event.getUid());
+
+    assertNotNull(ev);
+    assertEquals(1, ev.getEventDataValues().size());
+
+    // delete data Element in Event Data Values by setting its value to null
+
+    DataValue dataValueB = new DataValue();
+    dataValueB.setValue(null);
+    dataValueB.setDataElement(dataElementB.getUid());
+    dataValueB.setStoredBy(superUser.getName());
+
+    event.setDataValues(Set.of(dataValueB));
+
+    Date now = new Date();
+
+    eventService.updateEventDataValues(event);
+
+    manager.clear();
+
+    ev = programStageInstanceService.getEvent(event.getUid());
+
+    EventDataValue eventDataValueB =
+        ev.getEventDataValues().stream()
+            .filter(edv -> edv.getDataElement().equals(dataValueB.getDataElement()))
+            .findFirst()
+            .orElse(null);
+
+    assertNull(eventDataValueB);
+
+    TrackedEntityInstance trackedEntityInstance =
+        trackedEntityInstanceService.getTrackedEntityInstance(
+            trackedEntityInstanceMaleA.getTrackedEntityInstance());
+    assertTrue(trackedEntityInstance.getLastUpdated().compareTo(toIso8601NoTz(now)) > 0);
+  }
+
   @Test
   void testAddEventOnProgramWithoutRegistration() throws IOException {
     InputStream is =