It emerged after the Barcelona race that Alonso had a cut tyre when he came in for his fourth and final pitstop on lap 49 of 66.
The pitstop was not slowed at all and Alonso rejoined still comfortably ahead of main rival Kimi Raikkonen's Lotus.
Asked by AUTOSPORT if the puncture had threatened the victory, Ferrari boss Stefano Domenicali said it had all been well in hand.
"It was not a serious problem," said Domenicali.
"We had the data that the tyre was starting to go down slowly and our strategy was to stop him two laps later.
"But in order not to risk anything because we were controlling of course the pace of Kimi, we decided to bring him in in order to avoid any stress on certain corners."
Ferrari finished first and third in the race with Alonso and Felipe Massa, its best combined result of 2013 so far.