diff --git a/src/engine/writetransaction.cpp b/src/engine/writetransaction.cpp
--- a/src/engine/writetransaction.cpp
+++ b/src/engine/writetransaction.cpp
@@ -173,6 +173,7 @@
     DocumentDB documentFileNameTermsDB(m_dbis.docFilenameTermsDbi, m_txn);
     DocumentTimeDB docTimeDB(m_dbis.docTimeDbi, m_txn);
     DocumentDataDB docDataDB(m_dbis.docDataDbi, m_txn);
+    DocumentIdDB contentIndexingDB(m_dbis.contentIndexingDbi, m_txn);
     MTimeDB mtimeDB(m_dbis.mtimeDbi, m_txn);
     DocumentUrlDB docUrlDB(m_dbis.idTreeDbi, m_dbis.idFilenameDbi, m_txn);
 
@@ -206,6 +207,10 @@
             documentFileNameTermsDB.del(id);
     }
 
+    if (doc.contentIndexing()) {
+        contentIndexingDB.put(doc.id());
+    }
+
     if (operations & DocumentTime) {
         DocumentTimeDB::TimeInfo info;
         info.mTime = doc.m_mTime;
diff --git a/src/file/modifiedfileindexer.cpp b/src/file/modifiedfileindexer.cpp
--- a/src/file/modifiedfileindexer.cpp
+++ b/src/file/modifiedfileindexer.cpp
@@ -93,7 +93,6 @@
         // cause Baloo was not running and missed those events
         if (tr.hasDocument(job.document().id())) {
             tr.replaceDocument(job.document(), DocumentTime);
-            tr.setPhaseOne(job.document().id());
         }
         else {
             tr.addDocument(job.document());