Some 100 migrants are to start a new life in Germany after having been recognised as refugees.
The migrants, from Somalia, Eritrea and Ethiopia, are due to leave Malta on Thursday.
This is the third time that the German government has accepted a number of refugees who have been stranded in Malta for resettlement on humanitarian grounds.
The migrants will be seen off by Home Affairs Minister Carm Mifsud Bonnici and German Ambassador Bernd Braun.
Around 750 African immigrants living in Malta are in the process of being resettled to the US and several EU countries over the coming 12 months, the UN Refugee Agency said in June. Most are going to the US but France took a group of 92 migrants in April after having taken another large group late last year.
Germany also took 31 refugees from Malta last year.