The main target of the operation is the RED-Tabara, the Burundi Human Rights Initiative said, referring to the most active of the rebel groups which is deemed a terrorist organization by the Burundian government.
Burundi is part of a regional force agreed by the EAC in June to fight the myriad rebel groups involved in an upsurge of violence in the eastern DRC that has ensnared neighbouring countries.
"Several hundred Burundian soldiers and Imbonerakure -- more than 1,000 -- are believed to have gone to the DRC in successive waves since late 2021," the BHRI said in a report.
The Imbonerakure are members of the youth league of the ruling CNDD-FDD party of President Evariste Ndayishimiye.
Burundi has always denied carrying out any secret operations, insisting it has acted only within the framework of joint operations by the East African Community (EAC), African Union or United Nations.
"For more than 10 years, Burundian soldiers and Imbonerakure have periodically sought to hunt down Burundian armed opposition groups in the DRC," the BHRI said.
"But the current operation is different in scale and duration," it said, adding that about 700 were estimated to be on DRC soil in the early phase of the deployment in December.
The rights group, which is based abroad, said it collected testimonies from soldiers, relatives and members of the ruling and opposition parties.
It said it was not able to confirm the exact numbers of troops or incursions, although it reported that the UN Group of Experts collected information on 17 incursions in the Uvira region between September last year and this March.
"Some soldiers are ordered to swap their military uniforms for civilian clothes and leave behind possessions that could identify them," said the BHRI.