Ebbinghaus wrote various books on logic, set theory and model theory, including a seminal work on Ernst Zermelo. His book Einführung in die mathematische Logik, joint work with Jörg Flum and Wolfgang Thomas, first appeared in 1978 and became a standard textbook of mathematical logic in the German-speaking area. It is currently in its sixth edition. An English edition Mathematical logic (ISBN 0387942580) was published in the Springer-Verlag Undergraduate Texts in Mathematics series in 1984.
- Heinz-Dieter Ebbinghaus, Volker Peckhaus. Ernst Zermelo: An Approach to His Life and Work, 2007, ISBN 3-642-08050-2.
- Heinz-Dieter Ebbinghaus, Jörg Flum. Finite Model Theory, 2005, ISBN 3-540-28787-6.
- Heinz-Dieter Ebbinghaus, Jörg Flum, Wolfgang Thomas. Einführung in die mathematische Logik, five editions since 1978.