By train
There are frequent trains to Pécs from Budapest's Déli or Keleti station - see Hungarian Railway Timetable (http://elvira.mav-start.h...). The trip can be as fast as 2:40 on an express, but several hours longer by local clunker.
There is also a daily, daylight-hours train to/from Osijek in Croatia and Sarajevo in Bosnia up until late 2006, this ran as an overnight service in both directions, and a daily train to the city from Vienna.
By plane
Pecs Airport opened in 2006 and currently there are year-round flights to Corfu in Greece. There are no timetabled, domestic flights operating in Hungary at present.
By bus
Numerous buses from all directions including from cities in northern Croatia serve the city. Buses to Budapest's Nepliget station operate numerous times daily, though the trip is slower than the train, and far less scenic or comfortable.