JRS provides refugees with access to health care services that include, primary health care and preventive interventions that effectively reduce health risks. This is often done through referral services and follow-up, including referrals to other agencies and NGOs, assistance with hospital fees, and getting access to specialist medical treatment.

JRS also directly provides some health care services, such as the dispensing of medication, transport to medical centers, interpretation services, specialist clinic services, laboratory testing, radiography, surgery, maternal and obstetric care, and more. JRS implements preventive care programs through awareness campaigns and training sessions focusing on health and hygiene, including training on the prevention of HIV/AIDS, malaria, and tuberculosis.

In addition, JRS provides healthcare, social assistance, and psychosocial support services to chronically and terminally ill refugees, asylum seekers, and South Africans in Johannesburg and Pretoria, South Africa. JRS strengthens the capacities of community-based caregivers through psychosocial support and training workshops and community-based strategies for health promotion and disease prevention in non-communicable diseases through health advocacy.