Houston Public School District #294 provides a full continuum of services to eligible students with disabilities. Guided by the federal Individuals with Disabilities Education Improvement Act (IDEIA) and Minnesota regulations, Houston Public Schools ensure that all students eligible for special education services receive a free and appropriate public education. The need for special education services is determined through the Individualized Education Plan (IEP) development process, which results in a comprehensive plan addressing needs specific to the individual student.

The District offers programs and services for students who have met special education eligibility in any of the 13 disability areas identified in Minnesota Rules Chapter 3525. Houston's special education programs serve children age birth through 21 with a wide range of service delivery models. These models include home-based services for infants and toddlers and a variety of school-based services both within the school district and through contracted services with other public schools, intermediate agencies and appropriately licensed service providers.

Houston Public Schools receives support, guidance, specialized services and leadership through the Hiawatha Valley Education District (HVED).