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For the 2026 school year, there are 2 public schools serving 723 students in Marathon, NY (there are , serving 57 private students). 93% of all K-12 students in Marathon, NY are educated in public schools (compared to the NY state average of 85%).

The top-ranked public schools in Marathon, NY are Marathon High School and William Appleby Elementary School. Overall testing rank is based on a school's combined math and reading proficiency test score ranking.

Marathon, NY public schools have an average math proficiency score of 51% (versus the New York public school average of 52%), and reading proficiency score of 54% (versus the 49% statewide average). Schools in Marathon have an average ranking of 6/10, which is in the top 50% of New York public schools.

Minority enrollment is 2% of the student body (majority Hispanic and Black), which is less than the New York public school average of 60% (majority Hispanic).