The transept was renovated during the second building campaign of the second and third quarters of the 13th century. In comparison to the nave of the first building campaign the architecture had changed significantly. The lines are more elegant, the walls are open, verticalism is stressed. Nevertheless the problems of stability remained. The light construction, the poor bearing power and the foundations used caused new cracks and subsidences, especially at the frontages and the turrets. In 1950 a shore had to be put round the southern transept. The frontages and turrets needed new foundations. The foundations for each façade comprise 32 driven piles of 45 cm in diameter. How everything looked like in the past can still be seen in the angle between the northern aisle, the northern transept and the tower. The crossing piers, which were originally much lighter, the arch of the former tribune in the aisle and the triforium are still clearly visible.

As a consequence, an archaeological restoration was opted for as far as the transept and the choir were concerned. Prof. De Smidt's archaeological research supplied the necessary details..

The restoration of the transept mainly consisted in removing the dilapidated roofs, frontages and turrets. The four houses along the northern aisle were demolished. The walls were secured and the vaults were shored. Pile foundations were laid according to the already mentioned method for the frontages and the turrets. The turrets and frontages were reconstructed, the roof construction, vaults and lateral walls were restored. And last but not least the interior was decorated and the finishing touch was given. The restoration of the transept was completed at the 29th of September 1973.