Verstappen completed the best lap in 1 minute 43.744 seconds.
The second was Australian Daniel Ricciardo from Renault (+0.048 seconds), and Briton Lewis Hamilton from Mercedes (+0.096) closed the top three.
Russian racer Aplha Tauri Daniil Kvyat took 12th place in the final protocol, 1.082 seconds behind the leader.
Earlier it was reported that Valtteri Bottas became the best in the first practice of the Belgian Grand Prix.