Badgeify relies on the macOS Accessibility API to read notification counts from other applications. Ensure Badgeify still has the necessary permissions.
Open System Settings.
Navigate to Privacy & Security > Accessibility.
Find Badgeify in the list.
Make sure the toggle next to Badgeify is ON.
If it was already on, try toggling it OFF and then ON again. You might be prompted to enter your password.
Try adding a different standard app (like Mail or Messages) to Badgeify. Does the badge count work correctly for that app? This helps determine if the issue is specific to one source app or a general Badgeify problem.