This work sought to investigate how the teaching of Sciences in Rural Education was constituted within the scope of the Escola Família Agrícola (EFA) project, through the instruments of the Pedagogy of Alternation. The EFA is located in the municipality of São Lourenço do Piauí and operates on an alternating basis, students spend 15 days at school and 15 days in the community where they live, a routine that is inspired by the guiding principles of the Pedagogy of Alternation. As for the methodology, a qualitative-quantitative approach was developed, also counting on the documentary and ethnographic method. Materials were consulted, including official documents that contribute to the understanding of the functioning of the EFA. In the field data collection, a version was used as a basic instrument for the Scientific Literacy Test (TACB), applied to students. For the monitors, in addition to the TACB, a semi-structured form was used to outline their profile. The results revealed that, of the 38 students in the 3rd year of the Integrated High School Technical Course in Agriculture and Animal Science, only 11 (28,9%) could be considered scientifically literate, while 27 (71,1%) didn´t reach the minimum number of hits in the three axes. The research carried out in this work indicated that the students´ results were unsatisfactory in relation to the Simplified Basic Scientific Literacy (TACB-S), which implies the quality of science teaching in this EFA.