Gabriel Jesus added a third from an offside position, after substitute Alexander Lacazette had pulled one back, leaving Wenger raging. Youngster Matt Macey has being given an opportunity to impress in his absence.
Kevin de Bruyne put the hosts ahead with a driven finish on the 19th minute. That was his first game since recovering from a groin problem sustained at Chelsea, which has kept him out for a month.
But while Ederson was untroubled in the home goal, City lacked their usual flowing form in attack.
It's the weekend so that must mean it's time for some desperate soul-searching amongst Arsenal fans. "They are happy in the group, in the locker room - Fernandinho and for example David [Silva], these kind of players, they enjoy that situation". Antonio Conte's men are within a point of local rivals Tottenham Hotspur and second-placed United, who trail Manchester City by eight points.
Fernandinho joined City from Ukrainian side Shakhtar Donetsk in June 2013 and won the title in his first season at the club.
It is going to be a Super Sunday for all the football fans around the globe as Premier League will see four footballing giants locking horns with each other in two titanic clashes.
It is the best start to a season any team has made in the Premier League era after 11 games and it is surely not only Arsenal boss Arsene Wenger who finds it hard to see anyone catching City this season.
"He is extremely strong and brave, and behind his smile is a strength you would not guess".More news: Critics pretending United's start never happened — Mourinho
The former Atletico Paranaense player has been back to his very best this season and Guardiola agrees that he doesn't always get enough credit.
The Gunners must also match the quality of a very resilient Spurs team, who just defeated the European champions in a 3-1 home win which stunned the footballing world, after the international break.
We're just into November, if you look back at history teams have been caught before.
"You never know, but if on top of that the decisions they [receive], they will be unstoppable".
"Barcelona did it twice, [Manchester] United, a long time ago Celtic, Inter Milan with Jose [Mourinho] - I think it is an exceptional situation".
The Gunners are now 12 points off the top of the English Premier League table. 'It is one we want to take and I'm sure everyone in our camp will be focused on that.
Manchester City manager Pep Guardiola said an advantage of five points is nothing in case of 84 points available.