Karl von Auwers was able to convince him to start an academic career, leading to his habilitation in 1926. He became a close friend of Karl Ziegler, who was also doing his habilitation with Auwers during that time. The successor of Karl von Auwers, Hans Meerwein, accepted Wittig as lecturer, partly because he was impressed by the new 400-page book on stereochemistry that Wittig had written. In 1931 Wittig married Waltraud Ernst, a colleague from the Auwers working group. The invitation of Karl Fries brought him as professor to the TU Braunschweig in 1932. The time in Braunschweig became more and more problematic as the Nazis tried to get rid of Karl Fries and Wittig showed solidarity with him. After the forced retirement of Fries, in 1937 Hermann Staudinger offered Wittig a position at the University of Freiburg, partly because he knew Wittig from his book on stereochemistry in which he supported Staudinger’s highly criticized theory of macromolecules. The foundations of carbanion chemistry were laid during Wittig’s time in Freiburg.

In 1944 he succeeded the head of the organic chemistry department Wilhelm Schlenk at the University of Tübingen. Most of his scientific work, including the development of the Wittig reaction, was performed during this time in Tübingen. The 1956 appointment of the nearly sixty-year-old Wittig as head of the organic chemistry department at the University of Heidelberg as successor of Karl Freudenberg was exceptional even at that time. The newly built department and the close connection to the BASF convinced Wittig to take this opportunity. He worked at the University of Heidelberg even after his retirement in 1967 and published papers until 1980. Most of his awards were presented during this time at Heidelberg, such as the honorary doctorate of the Sorbonne in 1956 and the Nobel Prize in Chemistry in 1979.