Cytryn-Silverman (2015:199) reported that the church on Mount Berenike in Tiberias suffered damage during one of the 749 CE Sabbatical Year Earthquakes. The building was subsequently repaired and modified during later occupation phases.

According to Cytryn-Silverman, "Following the 749 CE earthquake, the church was repaired; the floors were plastered over; the atrium and narthex were joined together following the collapse of the partition wall." Additional structural changes included the construction of a tower on the south side, the addition of new rooms by blocking spaces along the southern sector, and the installation of external buttresses against the eastern and southern walls. Within the prayer hall the interior division was reorganized using "seven pairs of short columns found in situ."

Further alterations occurred during the Abbasid period, when the area opposite the bema was enclosed by walls and surrounded by benches, creating a small chapel. Despite these modifications the church continued in use for several centuries, with Cytryn-Silverman noting that it remained active at least until the twelfth century.