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Catholic diocese of Meerut purchased the present land of the school in 1965 and it was entrusted with the Capuchin Fathers of Our Lady of Assumption Church, Piplera-Masuri. In 1983, Fr. Tobias OFM Cap, the then parish priest of Piplera-Masuri, built a small school in the present campus with the financial assistance and necessary permission from the Catholic diocese of Meerut. In 1984, the school was named after St. Francis Xavier. In the same year, a convent of the SABS (Sisters of the Adoration of the Blessed Sacrament) Congregation was opened in the campus in view of rendering educational service to St. Xavier’s School. As a result, under the patronage of Catholic diocese of Meerut, Fr. Tobias OFM Cap and Sr. Celine Morley SABS assumed the responsibilities of the Manager and the Principal respectively. When St. Xavier’s Church, Kheda was declared a new parish in 1985, Fr. Devasia P.V became the Manager of St. Xavier’s School.

In 1993, the school obtained Non Objection Certificate (NOC) from the State Government and in the same year the Catholic diocese of Meerut handed over the school to Gyandeep Education Society, Meerut and from then the administration of the school is managed by Gyandeep Education Society. In 1996, the school was provisionally affiliated to the ICSE board. In 1998, St. Xavier’s School obtained permanent affiliation with the same board. In 2002, the school was upgraded to the level of senior secondary (ISC). The School celebrated its silver jubilee in 2011 and the new school block was blessed and inaugurated on November 24, 2012 by Rt. Rev. Francis Kalist, Bishop of Meerut Diocese and the President of Gyandeep Education Society.

At present, St. Xavier’s School serves the educational need of above 2000 students of the surrounding villages and towns with qualitative and experiential learning.