diff --git a/internal/datacoord/task_scheduler_test.go b/internal/datacoord/task_scheduler_test.go
index 6bcf4f1bc5..f28199dd50 100644
--- a/internal/datacoord/task_scheduler_test.go
+++ b/internal/datacoord/task_scheduler_test.go
@@ -29,6 +29,7 @@ import (
 	"go.uber.org/zap"
 	"google.golang.org/grpc"
 
+	"github.com/hashicorp/golang-lru/v2/expirable"
 	"github.com/milvus-io/milvus-proto/go-api/v2/commonpb"
 	"github.com/milvus-io/milvus-proto/go-api/v2/schemapb"
 	"github.com/milvus-io/milvus/internal/datacoord/session"
@@ -42,6 +43,7 @@ import (
 	"github.com/milvus-io/milvus/pkg/v2/proto/datapb"
 	"github.com/milvus-io/milvus/pkg/v2/proto/indexpb"
 	"github.com/milvus-io/milvus/pkg/v2/proto/workerpb"
+	"github.com/milvus-io/milvus/pkg/v2/util/lock"
 	"github.com/milvus-io/milvus/pkg/v2/util/merr"
 	"github.com/milvus-io/milvus/pkg/v2/util/paramtable"
 )
@@ -2190,3 +2192,103 @@ func (s *taskSchedulerSuite) Test_reload() {
 		s.Equal(indexpb.JobState_JobStateFailed, task.GetState())
 	})
 }
+
+func (s *taskSchedulerSuite) Test_zeroSegmentStats() {
+	ctx := context.Background()
+	catalog := catalogmocks.NewDataCoordCatalog(s.T())
+	taskID := UniqueID(111)
+	segID := UniqueID(112)
+	targetSegID := UniqueID(113)
+
+	workerManager := session.NewMockWorkerManager(s.T())
+	workerManager.EXPECT().QuerySlots().RunAndReturn(func() map[int64]int64 {
+		return map[int64]int64{
+			1: 1,
+		}
+	})
+
+	mt := &meta{
+		ctx:      ctx,
+		catalog:  catalog,
+		segments: NewSegmentsInfo(),
+		statsTaskMeta: &statsTaskMeta{
+			ctx:     ctx,
+			catalog: catalog,
+			tasks: map[int64]*indexpb.StatsTask{
+				taskID: {
+					CollectionID:    1,
+					PartitionID:     2,
+					SegmentID:       segID,
+					InsertChannel:   "ch-1",
+					TaskID:          taskID,
+					Version:         0,
+					NodeID:          0,
+					State:           indexpb.JobState_JobStateInit,
+					FailReason:      "",
+					TargetSegmentID: targetSegID,
+					SubJobType:      indexpb.StatsSubJob_Sort,
+					CanRecycle:      false,
+				},
+			},
+		},
+	}
+
+	catalog.EXPECT().AddSegment(mock.Anything, mock.Anything).Return(nil)
+	err := mt.AddSegment(ctx, &SegmentInfo{
+		SegmentInfo: &datapb.SegmentInfo{
+			ID:            segID,
+			CollectionID:  1,
+			PartitionID:   2,
+			InsertChannel: "ch-1",
+			State:         commonpb.SegmentState_Flushed,
+			NumOfRows:     0,
+		},
+	})
+	s.NoError(err)
+	cm := mocks.NewChunkManager(s.T())
+	catalog.EXPECT().AlterSegments(mock.Anything, mock.Anything, mock.Anything).Return(nil)
+	catalog.EXPECT().SaveStatsTask(mock.Anything, mock.Anything).Return(nil)
+	in := mocks.NewMockIndexNodeClient(s.T())
+	in.EXPECT().DropJobsV2(mock.Anything, mock.Anything).Return(&commonpb.Status{ErrorCode: commonpb.ErrorCode_Success}, nil)
+	workerManager.EXPECT().GetClientByID(mock.Anything).Return(in, true)
+
+	handler := NewNMockHandler(s.T())
+	ctx, cancel := context.WithCancel(ctx)
+	scheduler := &taskScheduler{
+		ctx:                       ctx,
+		cancel:                    cancel,
+		meta:                      mt,
+		pendingTasks:              newFairQueuePolicy(),
+		runningTasks:              make(map[UniqueID]Task),
+		notifyChan:                make(chan struct{}, 1),
+		taskLock:                  lock.NewKeyLock[int64](),
+		scheduleDuration:          Params.DataCoordCfg.IndexTaskSchedulerInterval.GetAsDuration(time.Millisecond),
+		collectMetricsDuration:    time.Minute,
+		policy:                    defaultBuildIndexPolicy,
+		nodeManager:               workerManager,
+		chunkManager:              cm,
+		handler:                   handler,
+		indexEngineVersionManager: newIndexEngineVersionManager(),
+		allocator:                 nil,
+		taskStats:                 expirable.NewLRU[UniqueID, Task](512, nil, time.Minute*15),
+		compactionHandler:         nil,
+	}
+	scheduler.Start()
+
+	scheduler.enqueue(newStatsTask(taskID, segID, targetSegID, indexpb.StatsSubJob_Sort))
+	for {
+		time.Sleep(time.Second)
+		if scheduler.pendingTasks.TaskCount() == 0 {
+			scheduler.runningQueueLock.RLock()
+			taskNum := len(scheduler.runningTasks)
+			scheduler.runningQueueLock.RUnlock()
+			if taskNum == 0 {
+				break
+			}
+		}
+	}
+	scheduler.Stop()
+	segment := mt.GetSegment(ctx, targetSegID)
+	s.Equal(int64(0), segment.NumOfRows)
+	s.Equal(commonpb.SegmentState_Dropped, segment.State)
+}
diff --git a/internal/datacoord/task_stats.go b/internal/datacoord/task_stats.go
index 3ca859efb2..5be68a84eb 100644
--- a/internal/datacoord/task_stats.go
+++ b/internal/datacoord/task_stats.go
@@ -176,6 +176,20 @@ func (st *statsTask) PreCheck(ctx context.Context, dependency *taskScheduler) bo
 		return false
 	}
 
+	if segment.GetNumOfRows() == 0 {
+		st.setResult(&workerpb.StatsResult{
+			TaskID:       st.taskID,
+			State:        indexpb.JobState_JobStateFinished,
+			FailReason:   "segment num row is zero",
+			CollectionID: st.req.GetCollectionID(),
+			PartitionID:  st.req.GetPartitionID(),
+			SegmentID:    st.targetSegmentID,
+			Channel:      st.req.GetInsertChannel(),
+			NumRows:      0,
+		})
+		return false
+	}
+
 	if segment.GetIsSorted() && st.subJobType == indexpb.StatsSubJob_Sort {
 		log.Info("stats task is marked as sorted, skip stats")
 		st.SetState(indexpb.JobState_JobStateNone, "segment is marked as sorted")