diff --git a/be/src/olap/memtable.cpp b/be/src/olap/memtable.cpp
index 22900abd83e073..ea3c0fcf6b6bf3 100644
--- a/be/src/olap/memtable.cpp
+++ b/be/src/olap/memtable.cpp
@@ -473,17 +473,6 @@ Status MemTable::_generate_delete_bitmap(int32_t segment_id) {
     {
         std::shared_lock meta_rlock(_tablet->get_header_lock());
         specified_rowsets = _tablet->get_rowset_by_ids(&_mow_context->rowset_ids);
-        if (specified_rowsets.size() != _mow_context->rowset_ids.size()) {
-            LOG(WARNING) << fmt::format(
-                    "[Memtable Flush] some rowsets have been deleted due to "
-                    "compaction(specified_rowsets.size()={}, but rowset_ids.size()={}), reset "
-                    "rowset_ids to the latest value. tablet_id: {}, cur max_version: {}, "
-                    "transaction_id: {}",
-                    specified_rowsets.size(), _mow_context->rowset_ids.size(), _tablet->tablet_id(),
-                    _mow_context->max_version, _mow_context->txn_id);
-            return Status::InternalError<false>(
-                    "[Memtable Flush] some rowsets have been deleted due to compaction");
-        }
     }
     OlapStopWatch watch;
     RETURN_IF_ERROR(_tablet->calc_delete_bitmap(rowset, segments, specified_rowsets,
diff --git a/be/src/olap/rowset/segment_v2/segment_writer.cpp b/be/src/olap/rowset/segment_v2/segment_writer.cpp
index c7c6a85dd7a379..02ea943818d812 100644
--- a/be/src/olap/rowset/segment_v2/segment_writer.cpp
+++ b/be/src/olap/rowset/segment_v2/segment_writer.cpp
@@ -401,16 +401,19 @@ Status SegmentWriter::append_block_with_partial_content(const vectorized::Block*
     {
         std::shared_lock rlock(_tablet->get_header_lock());
         specified_rowsets = _tablet->get_rowset_by_ids(&_mow_context->rowset_ids);
-        if (specified_rowsets.size() != _mow_context->rowset_ids.size()) {
+        if (_opts.rowset_ctx->partial_update_info->is_strict_mode &&
+            specified_rowsets.size() != _mow_context->rowset_ids.size()) {
+            // Only when this is a strict mode partial update that missing rowsets here will lead to problems.
+            // In other case, the missing rowsets will be calculated in later phases(commit phase/publish phase)
             LOG(WARNING) << fmt::format(
                     "[Memtable Flush] some rowsets have been deleted due to "
-                    "compaction(specified_rowsets.size()={}, but rowset_ids.size()={}), reset "
-                    "rowset_ids to the latest value. tablet_id: {}, cur max_version: {}, "
-                    "transaction_id: {}",
+                    "compaction(specified_rowsets.size()={}, but rowset_ids.size()={}) in strict "
+                    "mode partial update. tablet_id: {}, cur max_version: {}, transaction_id: {}",
                     specified_rowsets.size(), _mow_context->rowset_ids.size(), _tablet->tablet_id(),
                     _mow_context->max_version, _mow_context->txn_id);
             return Status::InternalError<false>(
-                    "[Memtable Flush] some rowsets have been deleted due to compaction");
+                    "[Memtable Flush] some rowsets have been deleted due to "
+                    "compaction in strict mode partial update");
         }
     }
     std::vector<std::unique_ptr<SegmentCacheHandle>> segment_caches(specified_rowsets.size());