The retailer has said it does not tolerate intimidation and will "act swiftly to eliminate any such behaviour."
In a programme aired on Germany's ARD channel, the documentary-makers alleged that the internet giant employed a group called HESS Security to monitor the behaviour of foreign workers employed at Amazon distribution centres.
The ARD team is said to have captured footage of the guards wearing black uniforms and boots, and sporting military haircuts and Thor Steinar clothing, a brand synonymous with the far-right and banned from many German institutions.
Amazon employs thousands of staff across several locations in Germany, including logistics centres in Bad Hersfeld, Konstanz and Augsburg. The documentary alleged that the temporary staff in those facilities were paid less than the rate first advertised, and could be fired at will, while working eight-hour shifts which could see them walking 17km.
A statement from Amazon.de said: "Over 7,700 permanent Amazon employees work in the German logistics centres, to support during the Christmas season we hire additional Amazon employees with a seasonal contract. These employees help us to cope with the increased number of customer orders during peak periods. Also, it gives us the opportunity to meet potential new long-term employees and hire adjusting to our future growth - after this year's holiday season approx 2,000 additional employees were transferred to a long-term employment. In high peak times, we also work with temp agencies.
"All associates working in logistics for Amazon earn over €10 gross an hour after one year, and over €9.30 in the first year. The associates from Spain mentioned in the feature, hired through the temporary employment agency, earned €1,400 gross per month in a 37.5 hour week, €1,500 a month on the night shift at 32.5 hours per week. These amounts were paid by contract, even if not the full contractual number of hours was requested.
"We take the safety and welfare of employees very seriously and regularly check external service providers responsible for the lodging of seasonal workers from other regions. We ask associates for feedback: Whenever employees suggest improvements concerning working conditions or accommodation we listen and address the concern immediately.
"Amazon does not tolerate discrimination or intimidation and we will act swiftly to eliminate any such behavior.
"We aim to deliver your goods quickly and reliably, also during peak season around Christmas. And we know: This can only be achieved with satisfied employees, no matter if they are long-term or seasonal employees or support us from a temporary employment agency. Therefore, please rest assured that we look into every incident reported to us by employees and take appropriate action."
Earlier this week the GMB union held protests in the UK over workers' pay and conditions at Amazon. However the company was judged the most respected in the US, ahead of Apple and Google, according to a report also released this week.