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Ok, so I found a solution. This is caused by <book> class which forces a new double page with each chapter (so chapter starts on the right).

I.e. there was either an empty left page or empty right (end of previous chapter) and empty left (start of new chapter) page.

LaTeX would get really confused ...

Dear experts, I am using The masters-doctoral-thesis template and there is an empty page before my first chapter, with the header "List of Tables", even though, the List itself is 20 pages before the first chapter (followed by acknowledgements etc.)

I have been looking at this for multiple days, I ...