The Sao Paulo skyline became increasingly heavy as dark clouds drew over the Interlagos circuit, prompting an early queue for laps as rain looked to be imminent in the opening phase of the session.
When it emerged, the circuit descended into darkness to prompt the throwing of a red flag, as the rain finally came once the opening laps had been concluded.
Verstappen ensured he was at the front of the queue, and set the only time in Q3 below the 1m11s mark as the overall pace had dissipated.
High winds ensured that track conditions became more difficult, and the drivers had to quickly conclude their laps - but nobody could overturn Verstappen's best effort before the cloud came - Oscar Piastri looked to be on course to get close, but instead went off the road at Turn 12.
The session was not resumed and Verstappen's pole was confirmed, as Charles Leclerc collected a front-row start for Sunday's race in Brazil.
Lance Stroll surprised to claim third on Sunday's grid, as Aston Martin timed its runs well; Fernando Alonso collected fourth over the Mercedes of Lewis Hamilton and George Russell.
Source: Autosport