However, the Catholic Church has moved to play down the controversy, saying the Pope knew "rather well what the Nazi ideology is about".
Humanists have said the comments were a "terrible libel" against non-believers.
In his address, the Pope spoke of "a Nazi tyranny that wished to eradicate God from society".
He went on to urge the UK to guard against "aggressive forms of secularism".
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* Pope tells of youth under Nazis
The Pope made his remarks in his opening address to the Queen at Holyroodhouse in Edinburgh.
He said: "Even in our own lifetimes we can recall how Britain and her leaders stood against a Nazi tyranny that wished to eradicate God from society and denied our common humanity to many, especially the Jews, who were thought unfit to live.
"As we reflect on the sobering lessons of atheist extremism of the 20th century, let us never forget how the exclusion of God, religion and virtue from public life leads ultimately to a truncated vision of man and of society and thus a reductive vision of a person and his destiny."
'Highly political'
A statement from the British Humanist Association said the Pope's remarks were "surreal".
It said: "The notion that it was the atheism of Nazis that led to their extremist and hateful views or that it somehow fuels intolerance in Britain today is a terrible libel against those who do not believe in God.
"The notion that it is non-religious people in the UK today who want to force their views on others, coming from a man whose organisation exerts itself internationally to impose its narrow and exclusive form of morality and undermine the human rights of women, children, gay people and many others, is surreal."
The German-born Pope has previously spoken of his time growing up under the "monster" of Nazism.
He joined the Hitler Youth at 14, as was required of young Germans at the time.
Late on in WWII he was drafted into an anti-aircraft unit in Munich.
He deserted the German army towards the end of the war and was briefly held as a prisoner-of-war by the Allies in 1945.
The Pope's conservative, traditionalist views were intensified when teaching at the University of Bonn in the 1960s he was said to be appalled at the prevalence of Marxism among his students.
In his view, religion was being subordinated to a political ideology that he considered "tyrannical, brutal and cruel".
He would later be a leading campaigner against liberation theology, the movement to involve the Church in social activism, which for him was too close to Marxism.
http://www.bbc.co.uk/news/uk-11332515
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on god
16.09.2010 22:04
Mother Mary With The Holy Child Jesus Christ Oil and Canvas by Adolf Hitler1913
Nicomachean Ethics?
WHAT A HYPOCRITE! He was (and is) a WILLING NAZI
16.09.2010 22:15
The mists of history swirl around Pope Benedict XVI's hometown in the foothills of the Bavarian Alps in Germany.
It was there that he came of age as Joseph Ratzinger and served in Hitler Youth during the rise of the Third Reich.
Shining a light on that history offers a glimpse of the context underpinning the Vatican's current crisis, which results from the pope's decision last month to rescind the excommunication of a renegade, ultra-conservative bishop who actively denies the Holocaust.
The decision unleashed a firestorm of controversy, with the German government weighing in last week, Israel's chief rabbinate severing ties with the Vatican, and Catholics and Jews worldwide feeling that decades of hard work and goodwill in improving relations between the two faiths had been undermined.
So can we draw a line from this oversight by the pope, this inability to see how much his decision would insult so many, back to his German past and a decision as a 14-year-old boy to join the Hitler Youth?
Most thoughtful Catholics and many Jewish historians I know would say, no, that is not a line that can be drawn, nor is it fair.
But one man who knows some of the hidden truths in the pope's hometown of Traunstein is Father Rupert Berger, and his story deserves telling.
Berger, now 81, was ordained a Catholic priest alongside Joseph Ratzinger and his brother, Georg, in 1951 in the beautiful church in the center of the town where they all grew up together.
But there was something that set their two families apart.
Berger's family sympathized with the Catholic resistance to Nazism in the town. Rupert was the same age as Joseph Ratzinger and at 14 years old he refused to join Hitler Youth. His family suffered as a result. He told me in an interview in 2005 that his father was sent to Dachau. He returned after the war and became the mayor.
Ratzinger's father was a policeman. The family was never affiliated with the Nazi party. But the Ratzingers chose to go with the vast majority of Germany and acquiesce to the regulations requiring 14 year olds to join Hitler Youth. They wanted to survive and allow their two sons to focus on academics in the seminary. So Ratzinger and his brother joined at 14 and went through with the parades and the salutes to the Fuehrer. Ratzinger also served briefly with a German army anti-aircraft unit just before the end of the war.
When I interviewed Berger in April 2005, just after Ratzinger had been elevated to the papacy, he spoke well of Ratzinger's intellect and discipline as a young man. But he said he couldn't understand why Ratzinger had insisted for so long in so many public statements that no one had a choice but to join Hitler Youth.
''It was a hard time to live, and there were hard choices to make," Berger said.
He was too modest or polite, or perhaps uncertain about what to tell a reporter who landed on his doorstep, to state his opinion about the new pope's choices any more clearly.
But what I took away from the interview and my research in the town was that the pope's repeated assertion that he had no choice but to join Hitler Youth was simply not true.
In fact, the statement is an insult to the memory and the lives of those who did resist Nazism and those who did refuse to join the organizations that were formed to perpetuate its power.
The pope's poorly-thought-out edict to reinstate the Holocaust-denying bishop — from which the Vatican is now vigorously back peddling — was also an insult to those who resisted Nazism and to Jews and Catholics alike around the world.
At the end of the day, it shouldn't surprise us that this pope overlooked — or failed to adequately investigate — the dangerous and virulent strains of anti-Semitism that ran through British Bishop Richard Williamson's research that denied the Holocaust.
Paul King
This undesirable should never have been granted access to the UK
17.09.2010 06:21
Crazy Barry
Anti-pope nutters arrested
17.09.2010 11:53
breaking news
Five men have been arrested by the Metropolitan Police in London in relation to a potential threat to the Pope.
The arrests were made at 0545 BST at addresses in London after counter-terrorism officers received intelligence of a potential threat.
The five men have been taken to a central London police station.
Officers are continuing searches at premises connected to the raids.
In a statement from Scotland Yard, the Metropolitan Police said that the five men had been arrested in an operation launched by officers from the force's Counter-Terrorism Command.
The five were arrested on suspicion of the commission, preparation or instigation of acts of terrorism under the Terrorism Act 2000.
The five men are 26, 27, 36, 40 and 50 years old. They were arrested in an armed operation at business premises where searches are continuing.
Residential premises in north and east London are also being searched. Officers have not found any hazardous items.
Reality Check
Human rights and police PR.
17.09.2010 21:31
The five men have been taken to a central London police station.
Officers are continuing searches at premises connected to the raids.
In a statement from Scotland Yard, the Metropolitan Police said that the five men had been arrested in an operation launched by officers from the force's Counter-Terrorism Command."
Dismissing the usual "state affiliated" crapola that "reality check" usually carps on about.
I think we can safely dismiss this hierarchical, cut & paste comment as met police PR rubbish. The police were always going to find terrorists while the Pope was here.
Odd that a senior Pakistani political figure is found brutally murdered and the police are fucking clueless, but they still have enough to pull in half a dozen 'immigrants' on terrorism charges on the day the pope arrives in Westminster!
Where did this intelligence 'tip-off' come from I wonder, the police themselves?
Reality check, you need to grow up and get a pair sonny boy!
Reality check, you idiot!
Just because he's a nazi it doesn't mean that all athiests are
17.09.2010 21:53
peter
Hitler was an occultist
19.09.2010 13:17
The Pope knows all this but prefers to overlook and call Hitler an atheists. This is because some of this occult nonsense has found it way into the Vatican. The previous Pope, John, was an initiate of a secret society that teaches this bollocks. Given Ratsinger was a Nazi youth himself, it would not be surprising if he knew an awful lot about this.
insidejob