The Kenya Medical Supplies Authority (Kemsa) is on the spotlight again, after hundreds of thousands of condoms, mosquito nets and tuberculosis drugs worth $100,000 (£77,000) disappeared from its warehouse.
The lost medicines are believed to have been stolen and resold on the black market and to private chemists, according to the Global Fund.
The fund also accuses Kemsa of overstating the value of medicines by millions of dollars, with some drugs having been inflated 100 times.
The government agency has not yet commented on the allegations.
The Global Fund finances Kenya's fight against HIV/Aids, tuberculosis and malaria.
Kemsa made headlines in 2020 after revelations of fraud over the procurement of Covid-19 medical supplies.
Tenders worth $78m were said to have been irregularly given to politically connected individuals and businesses.
This prompted President Uhuru Kenyatta to disband its board and top management.
The Global Fund, which has disbursed more than $1.4m to Kenya in the last two decades, has recommended further investigation of Kemsa over the lost medicines.