The result temporarily moved the Red Devils to the top of the Barclays Premier League table, and Ferguson praised his side's committed performance despite the fact they missed several chances to make the scoreline more impressive.
"I thought it was a good performance but I thought we were wasteful with the chances we had in the match," Ferguson told Sky Sports in his post-match interview.
"We should have really had the game won by the 30 minute mark but their goalkeeper [Radek Cerny] had two fantastic saves, obviously we missed a couple of really good chances.
"But all in all, it was a very good performance."
Wayne Rooney opened the scoring inside a minute with a well-taken header, and Michael Carrick sealed the win with a fine individual goal early in the second-half, to continue Manchester United's rehabilitation following their shock UEFA Champions League exit last week.
"I think [Carrick's goal] puts the game to bed really and he did fantastically well," Ferguson added. "He's been at the top of his game now Michael, I'm really pleased with his performances and he gave us that control in the middle of the pitch with Phil Jones.
"We are not immune to losing a game, obviously we don't want to lose big ones [referring to the defeat in Basel]. But, in the nature of our club, it's been put down as another day in the history of Manchester United and we get on with it.
"We don't sit and moan about it, we do something about it and I think the players have done that."