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Sergio Perez was runner-up under the Jeddah Corniche floodlights, last year's winner taking the chequered flag 13.643 seconds behind his triple world champion teammate who now has a 15-point lead in the standings.
Verstappen senior also denied involvement in the anonymous email.
The Dutch driver took the chequered flag 22.4 seconds clear of his team mate Sergio Perez driving a similar RB20.
Red Bull has said the investigation report will remain confidential.
The action starts in Bahrain on Saturday.
It may be wishful thinking to expect a big change at the front, with Verstappen only getting better and teammate Sergio Perez posing no threat, but even Red Bull recognise they may never have it so good again.
The pole-to-flag victory, for the fourth year in a row under the Yas Marina floodlights, left the 26-year-old alone in third place in Formula One's all-time list of winners.
Charles Leclerc finished second after starting on pole position, losing and regaining the lead and then losing it again before passing Sergio Perez on the final lap to deny Red Bull a seventh one-two of the season.
On a nightmare afternoon for Mexican teammate Sergio Perez, who retired after colliding at the first corner with Ferrari's Charles Leclerc, the Dutch 26-year-old also equalled French great Alain Prost's haul of 51 career wins.
Formula One leader Max Verstappen ran away with the Japanese Grand Prix from pole position on Sunday as his dominant Red Bull team secured the constructors' title for the second year in a row. The victory at Suzuka was the Dutch driver's 13th in 16 races this season and left him on the verge of a