Spurs, who played 120 minutes in the Europa League on Thursday, were undone by Dimitar Berbatov's second-half goal - his first at White Hart Lane since leaving Spurs.
"It was nothing to do with the players," Villas-Boas said.
"The effort and commitment were there. Probably the organisation wasn't, and it is down to us to get to business and correct that."
Given that Tottenham now sit just four points ahead of Arsenal, who have one match in hand, Villas-Boas accepts comparisons will be drawn between his side's current dip in form and the one that took place under Harry Redknapp last season.
"You can't hide from what has happened in the past with Spurs," Villas-Boas said.
"You just have to make sure that we are able to fight against it. It has been difficult month for us.
"If we are able to find our form or confidence and win then we can end that cycle that Spurs normally have. We just have to work hard."
Villas-Boas confirmed that Aaron Lennon, who missed the game with hamstring and groin injuries, will not join up with England for their World Cup qualifiers against San Marino and Montenegro.
The Portuguese said it was also unlikely that Michael Dawson, who had to be withdrawn at half-time due to a hamstring complaint, would feature for the Three Lions.