The Bundesliga club handed the 28-year-old a 2,250 euros (£1,768) fine - 50 euros for every minute.
"I didn't hear my alarm," the Denmark international told Germany's Bild newspaper. "It's my mistake."
The striker was also punished last month after posting a photo of himself alongside his Mercedes car, when Wolfsburg's policy only allows employees to turn up to training in a Volkswagen.
Nicknamed 'Lord Bendtner' by the German press, the player was once fined £80,000 and banned for a game by Uefa for revealing sponsored underwear after scoring against Portugal in Euro 2012.
And he was also fined by former club Arsenal in 2014 for an unauthorised trip to Copenhagen.

Jin Ok scored the game-winning goal after GB had come back from 2-0 down.
Third-period goals from Angela Taylor and Leanne Ganney levelled the game after Jong Su-hyo and Won Chol-sun had put North Korea in charge.
The game gives Britain their first point of the tournament but they are bottom of Group A after three games.
"Nobody likes losing and it's disappointing," said Britain's head coach Cheryl Smith.
"I am more disappointed because we took some risks. We were 2-0 down, took a risk and got the goal back.
"We got our heads together and the girls listened and we got back into the game.
"The game was going our way when we got back into it at 2-2, but we just didn't finish it.
"We had the chances in overtime but we just did not get it done."
Britain, who have also lost to the Netherlands and South Korea in this event, return to action tomorrow when they face Slovenia at 16:30 (08:30 BST).
Wolfsburg forward Nicklas Bendtner has been fined for turning up 45 minutes late for training after sleeping through his alarm.
[NEXT_CONCEPT]
Great Britain's women fell to an overtime defeat by North Korea in their third Group A game in World Championship Division Two in Gangneung.