The number unemployed increased 22,000 in the quarter but declined by 49,000 compared to the same period a year ago, the Office for National Statistics said.
Wages rose faster than inflation but real pay still remains below where it was prior to the financial crisis more than a decade ago.
Howard Archer of the EY Item Club said: "The latest jobs data are weaker across the board, indicating that the labour market is now undeniably faltering in the face of overall soft domestic economic activity, a weakening global economy and heightened Brexit and domestic political uncertainties."
The total number of people in work fell by 56,000 over the three-month period, taking the overall employment rate down to 75.9 per cent from 76.1 per cent.
ONS deputy head of labour market statistics Matt Hughes said: “The employment rate is still rising year-on-year, but this growth has cooled noticeably in recent months. Among the under-25s, the employment rate has actually started to fall on the year.
“Pay growth continues to outstrip inflation, as it has done for over eighteen months now.
— Office for National Statistics (@ONS)October 15, 2019
Despite the 0.1 per cent rise in unemployment to 3.9 per cent, the proportion of people jobless remains at its lowest level since the 1970s.