The State Department for ASALs and Regional Development has been allocated Sh8.2 billion by the National Assembly for various interventions including flood mitigation efforts.
The funds will also go towards emergency relief assistance, especially during the ongoing El Nino.
President William Ruto on Thursday assented to the Supplementary Appropriation Bill at State House.
The allocation comes at a time when counties are experiencing impacts of the rains.
According to the Red Cross, the El Nino rains are now affecting 33 counties.
The rains have caused havoc in more than 19 counties in the Arid and Semi-Arid Lands (ASAL) and non-ASAL areas where residents are staring at risk of disease outbreaks as the raging floods maroon several homes.
Some of the counties include Mombasa, Garissa, Tana River, Makueni, Marsabit, Kilifi, Kwale, Meru, Isiolo, Turkana, Samburu, Wajir, Homa Bay and Busia.
The allocation comes at a time when Governors have called out the National Government over the unavailability of funds to address the El Nino effects.
The council of governors on Wednesday criticised Deputy President Rigathi Gachagua for claiming that the devolved unit has received El Nino funds.
"To date, we wish to state that the county governments have not received any allocation from the national government to go towards mitigation measures," CoG chairperson Anne Waiguru said during a press briefing.
Waiguru who is also Kirinyaga Governor noted that some counties have not yet received their equitable shares from the national government.
"Counties are owed a total of Sh62.58 billion from the equitable share that is yet to be disbursed," she said.
Waiguru said 13 counties are owed Sh10.17 billion for September, 27 counties are owed Sh19.64 billion for October and all counties are owed, Sh32.76 billion for November.
DP Gachagua had told counties not to expect any funds from the government for El Nino effects.
Speaking on Wednesday from Karen, the DP said that there will be no money released but counties should utilise emergency funds.
"We are shocked to see governors complaining that they are yet to receive money for El Nino from the national government; such money is not coming," Gachagua said during the launch of the Development Partnership Forum.
"We expect them to use emergency money within their financial provision or reallocate money within their budget to intervene for the people they govern."
The DP clarified that the national government would offer support to counties through the county coordination teams co-chaired by county commissioners and governors.
Gachagua explained that in the last consultation with the governors, they did agree on a coordination framework between the national government, the county governments and our development partners.
"We did agree that the county coordination teams that are co-chaired by the county commissioners and governors would be the forum through which to channel help," he explained.
"We did appeal to our development partners to upscale their level of assistance and I am grateful that continues to flow."
The DP stated that the national government committed to setting aside funds for these interventions and appealed to the county governments also to consider channeling funds for these interventions.
"However, there has been a misconception that some county governments have been waiting for the national government to give them money for these interventions. That is not the case," Gachagua stated.
This is contrary to what he said on Tuesday while in Mombasa where he announced that the national government has disbursed Sh10 billion to counties hard hit by El Nino rains and floods.
Gachagua urged the affected counties to defer their development plans and re-direct funds to mitigate the effects of the floods.