Cyclone Kenneth has made landfall in northern Mozambique, a country still recovering from another huge storm.
The cyclone has weakened in the past few hours but is forecast to cause flooding and bring storm surges of up to 5m (16ft).
Communities in northern Mozambique and the southern Tanzanian region of Mtwara are being warned to seek higher ground and shelter.
Last month, Cyclone Idai caused hundreds of deaths in the region.
More than 900 people died when the storm brought devastation to Mozambique, Malawi and Zimbabwe.
At least three million people were left in need of humanitarian assistance.
- Africa Live: More on this and other stories
- Cyclone Idai: What the aftermath looks like
- How prepared was southern Africa for Idai?
The latest system is expected to hit further north than Idai, forecaster say.
What is the latest?
Kenneth, an intense tropical cyclone, made landfall on the north coast of Mozambique on Thursday evening.
Despite its weakening, forecasters still say gusts of more than 200km/h (124mph) are expected, powerful enough to knock down buildings.
Forecasters warn it is likely to be slow-moving, meaning heavy rain is expected to fall on the area for several days.
Flights have already been cancelled and schools closed as Mozambique braces for the storm to hit.
Its violent winds and rains hit the island nation of Comoros overnight. Authorities there say the storm killed at least three people as it swept through.
The country's two main islands saw power outages and trees downed in high winds, Reuters news agency reports.
The International Federation of Red Cross and Red Crescent Societies shared images of the damage on social media.
In a tweet, the group confirmed it had volunteers on the ground assisting communities.
Late on Wednesday, the head of the UN Office for Disaster Risk Reduction said she feared the region faced "another humanitarian catastrophe".
Mami Mizutori shared an image which showed the large storm system on Twitter, warning it was already comparable in intensity to Cyclone Idai.
There is no previous record of hurricane-force systems ever hitting the region so far north before, BBC Weather reports.
The storm is expected bring 1m of rain to some areas of Mozambique.
Despite Zimbabwe being further inland, officials there say they are still putting their disaster management agencies on alert.
"Drawing lessons from Cyclone Idai we cannot take chances any more," said Department of Civil Protection Director Nathan Nkomo.
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