Among his writings are:
- Excavations in Nazareth, volume 1, From the Beginning till the XII Century (1971) and volume II, From the 12th century until Today
- The church from the circumcision: history and archaeology of the Judaeo-Christians.
Bagatti discovered that the town now known as Nazareth was no more than a small hamlet in the 1st century. John Dominic Crossan remarks that looking at the plans drawn up by Bagatti ... one realizes just how small the village actually was.
His thesis of the Church of Zion, Jerusalem (1976) gained the support of Emmanuel Testa but is not generally accepted by the majority of archeologists.
- John Dominic Crossan, The Historical Jesus