The government and transport operators are in talks to resolve the dispute over the hike in fuel prices.
Hundreds of cases are suspected in central Africa but experts fear the actual number may be much higher.
The World Health Organization (WHO) has declared the outbreak an international emergency.
An outbreak of Ebola in DR Congo involves a rare strain and is in an area affected by conflict.
Thousands of commuters are stranded, with key roads in the capital Nairobi largely empty due to the protests over fuel costs.
BBC World Service exclusive: the private world of one of Africa's most powerful political women.
The private world of one of Africa's most powerful political women is revealed in a BBC World Service exclusive.
An outbreak in DR Congo has been declared a health emergency, with almost 250 suspected cases reported.
An outbreak in DR Congo has been declared a health emergency, with almost 250 suspected cases reported.
The agency added that the outbreak, with around 246 cases and 80 deaths, does not meet the criteria of pandemic emergency.