While Bottas was able to make a superb start to take the lead off the line in Suzuka, Hamilton could not get by Sebastian Vettel and was touring in third.
With Vettel and Bottas committing to two-stop strategies, Mercedes opted to put Hamilton on a one-stop.
This was something the champion took great exception to as race engineer Pete Bonington explained the move mid-race.
PB: "So you're currently P3. Vettel 10 seconds ahead. Deg looks very high, so one stop will be a struggle. Let's chase Vettel down."
LH: "Valtteri, how far?"
PB: "Valtteri's nearly got a full pit stop."
LH: "How have I lost that much time?"
PB: "Deg is much higher, deg is much higher. And we lost time behind Vettel."
LH: "I'm out of the race now. If deg is that massive why didn't you give me hard tyres? Can you guys explain a bit please. I'm basically out of the race with a pitstop behind."
PB: "So Vettel is guaranteed a two-stop, so we can see how this comes to us."