- Adolescent and Youth Health and Development Program
- Botika Ng Barangay
- Breastfeeding Program / Mother and Baby Friendly Hospital Initiative
- Blood Donation Program
- Cancer Control Program
- Child Health
- Diabetes Mellitus Prevention Program
- Dengue Control Program
- Dental Health Program
- Doctors to the Barrios (DttB) Program
- Emerging Disease Control Program
- Environmental Health
- Expanded Program on Immunization
- Family Planning
- Food and Waterborne Diseases Prevention and Control Program
- Food Fortification Program
- FOURmula One
- Garantisadong Pambata
- GMA 50 / Parallel Drug Importation (PDI)
- Healthy Lifestyle Program
- Health Sector Development Program
- Knock-Out Tigdas
- Leprosy Control Program
- Malaria Control Program
- Measles Elimination Campaign (Ligtas Tigdas)
- National Cardiovascular Disease Prevention and Control Program
- National Filariasis Elimination Program
- National Mental Health Program
- Natural Family Planning
- Newborn Screening
- Nutrition
- Occupational Health Program
- Health Development Program for Older Persons (Elderly Health)
- Pinoy MD
- Persons with Disabilities Program
- Pnuemonia and Other Acute Respiratory Infections (ARI's)
- Prevention of Blindness Program
- Rabies Control Program
- Safe Motherhood and Women's Health
- Schistosomiasis Control Program
- Smoking Cessation Program
- Soil Transmitted Helmenthiasis
- TB Control Program