Police first searched at a mosque in western Berlin before finding them at separate location in the south of the capital.
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But investigators still believe there may have been plans for an attack in the city of Dortmund, North Rhine-Westphalia.
In September, Berlin police raided eight buildings following an investigation into Islamist extremists.
German police commando units have arrested two people in Berlin who are suspected of planning an attack, a police spokesman said this afternoon.
German police detained on Thursday two suspected jihadists in Berlin during a series of raids targeting possible Islamists.
However, they were allowed to walk free on Friday after police said they had found no evidence of explosives in the auto or in the nearby Charlottenburg mosque where they were apprehended during a raid.
The men were released in Berlin just as another man was arrested in southern Germany on suspicion of supplying the weapons used in the November 13 Paris attacks that left 130 people dead.
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The two suspects in custody were men aged 28 and 46, according to German news agency DPA. Law enforcement is still looking for 26-year-old Salah Abdeslam, who lived in Brussels, and another man Mohamed Abrini, who authorities said had been seen with Abdeslam in the days leading up to the attacks.
