Movistar Yamaha rider Jorge Lorenzo was unstoppable once again as he set the fastest time in the third practice session at Motegi on Saturday.
Lorenzo, who didn't seem troubled by his shoulder injury, also set the pace in the first two practice sessions on Friday.
Ducati riders Andrea Iannone and Andrea Dovizioso, who were second and third respectively, gave Lorenzo a run for his money towards the end of practice session as they switched to extra soft rear tyres. However, Lorenzo refused to be beaten and registered a time of 1m44.089s, which put him nearly half a second ahead of Iannone and Dovizioso.
While Lorenzo's tyre of choice seems to be the softer compound, defending champion Marc Marquez spent the majority of FP3 on the mediums, and as a result found him at the wrong end of the top 10 until later in the session.
In the closing stages of the session, the Spaniard recorded a time of 1m44.771s to end final practice in fourth place, five hundreds of a second in front of Valentino Rossi in fifth.
Marquez's Honda team-mate Dani Pedrosa was unable to rectify some of the handling issues he had on Friday and was unable to improve on his performances from the day before on Saturday, slipping down to sixth place on combined times.
The remainder of the top 10 are rounded out by LCR pair by Pol Espargaro and Cal Crutchlow, as well as Bradley Smith and Aleix Espargaro on the Suzukis.
The Q1 list was topped by Scott Redding (Marc VDS) and Maverick Vinales (Suzuki), followed by Open rider Hector Barbera, Pramac Ducati pair Danilo Petrucci and Yonny Hernandez, as well as factory wild-cards Katsuyuki Nakasuga (Yamaha) and Takumi Takahashi (Honda).