IDSA and HIVMA urged lawmakers to also preserve crucial infrastructure and other programs that support PEPFAR's implementation.
The preventable deaths include those of 4.5 million preschool children.
In total, 55% of active tuberculosis, 99% of latent tuberculosis, 61% of hepatitis B, 35% of HIV, and 83% of hepatitis C infections were new diagnoses.
The Trump administration's executive order will upend one of the most successful health programs in the history of public health.
If PEPFAR funding is cut, nearly 500,000 children in Africa may die of AIDS-related causes and 1 million may be infected with HIV in the next 5 years.
Malaria, HIV, and TB programs are already feeling impacts from the cuts, with scale-backs also depleting healthcare services in Afghanistan.
Several CDC pages have been taken down amid a move by the Trump administration to remove all language related to gender identity and LGBTQ issues.
With a total of $100 billion spent, PEPFAR is the largest public health commitment in history by any country to address a single disease.
The report also spotlights the urgency of vaccines for pathogens such as group A Streptococcus and Klebsiella pneumoniae, which are increasingly resistant to antimicrobials.
During the study, 9 people tested positive for HIV, most of them during the pandemic, which the authors say is more than expected.