The protesters chanted and carried banners with slogans condemning the violence against the Hausa people.
On Tuesday, the security services in Khartoum used tear gas to disperse protests led by hundreds of Hausa people in solidarity with their families in the Blue Nile region.
The violence that took place in the southeastern region of the country, between the Funj and the Hausa tribe, resulted in the killing of 79 people and the injury of 199 others, according to official reports.
Hundreds of protesters marched in Khartoum demanding retribution for the deaths.
More than 15,000 citizens have been displaced from the region following the violence in the Blue Nile state.
The Hausa marched in angry rallies in the cities of Kassala, al-Ubayyid, Kosti, and Gedaref.
The protests were at their most violent in Kassala State, with the killing of three people and the burning of government buildings reported.
The Blue Nile conflict began after a herdsman was killed the morning of Eid al-Adha, after which began a series of retaliations between the two conflicting tribes.