Paulo Fonseca's side moved back to the summit, after Sporting Lisbon briefly went top following their 4-0 rout of Vitoria Setubal on Saturday.
Fredy Montero's brace for Sporting sandwiched Andre Carrillo's strike before Adrien Silva made it four from the penalty spot.
Porto's win at the Estadio Municipal de Arouca extended their unbeaten start to the new campaign.
Pintassilgo halved the deficit in the 89th minute, but Juan Quintero responded in the second minute of injury-time to restore his side's two-goal cushion.
Jorge Jesus' charges moved ahead after 10 minutes when Brazilian Lima opened the scoring.
Filipe Goncalves was then sent off for the home side for a second bookable offence, before Oscar Cardozo piled on the misery with Benfica's second in the 71st minute.
Javier Balboa pulled a goal back almost immediately, but Estoril were unable to force an equaliser despite Maxi Pereira receiving his marching orders in the closing stages.
Elsewhere, Nacional leapfrogged opponents Braga into fourth place with a commanding 3-0 win at the Estadio da Madeira.
Manuel Machado's side wrapped up their victory courtesy of Daniel Candeias' 74th-minute strike.
Pacos de Ferreira remain bottom of the league after falling to a 2-1 defeat at Gil Vicente.
