Zynga's woes were visible in Facebook's results, with Facebook's payments revenue from the maker of Farmville down 20 per cent year on year.
Zuckerberg said he was not pleased with revenue from gaming, but said that beyond Zynga - which accounts for 7 per cent of Facebook's total revenue - the situation was brighter.
"The interesting thing is that the rest of the games ecosystem has actually been growing. Our monthly payments revenue from the rest of the ecosystem increased 40 per cent over the past year, since payments has been adopted," he said.
Zuckerberg also said Instagram, the photo-sharing app that Facebook acquired for roughly $750 million this year, now has 100 million users, up from 27 million when Facebook bought the company.
Facebook posted a net loss of $59 million or 2 cents a share in the three months ended September 30 after booking a big provision for income taxes.
Excluding share-based compensation and income tax adjustments, it earned 12 cents a share, a penny higher than the average analyst expectation.
Facebook finance chief David Ebersman said the company would continue to invest aggressively during the fourth quarter, though the company did not provide a specific financial outlook, in keeping with its previous practice.
Ebersman said that the total number of ads that Facebook delivered in the third quarter increased 27 per cent year-on-year and that the average price per ad increased 7 per cent.
Facebook's third-quarter mobile revenue marked a big jump from the second quarter, when Facebook said it was generating more than $1 million a day from a new class of ads that appear in users' newsfeeds.
Facebook said roughly half of that revenue was from mobile ads, suggesting that mobile advertising revenue totaled $45 million in the second quarter.
Stifel Nicolaus analyst Jordan Rohan said Facebook's mobile ad revenue was impressive, but said the site needs to proceed carefully not to damage the user experience by overloading its service with too many ads.
And he said that Facebook's desktop PC advertising business appeared to have shrunk by about $40 million from the second quarter. Rohan said he would rather see the desktop ad business remain stable as the mobile ad business grows.
Facebook's third-quarter revenue of $1.26 billion was a hair above the average analyst expectation of $1.23 billion, according to Thomson Reuters I/B/E/S.
