Online scheduling of operations is essential to optimize productivity of flexible manufacturing systems (FMSs) where manufacturing requests arrive on the fly. An FMS processes products according to a particular flow through processing stations. This work focusses on online scheduling of re-entrant FMSs with flows using processing stations where products pass twice and with limited buffering between processing stations. This kind of FMS is modelled as a re-entrant flow shop with due dates and sequence-dependent set-up times. Such flow shops can benefit from minimization of the time penalties incurred from set-up times. On top of an existing greedy scheduling heuristic we apply a meta-heuristic that simultaneously explores several alternative...