In February 2017, the United States Army Corps of Engineers released a report on the seawall that protects Enders Island and the erosion that threatens the septic system. The report includes claims that Enders Island is being used for numerous religious and non-religious purposes, many of which violate the terms of the deed that conveyed Enders Island to the Society of St Edmund and local zoning regulations, especially use as a public recreation facility.
In November 2011, St. Edmund's replied to the Attorney General of Connecticut about the concerns raised in the MNPA report. In its response, St Edmund's claimed that the current use of the property was consistent with the intent of the grantor, Alys Enders, and, thus, there were no violations of the deed restrictions.
In July 2011, conncerned about the proposal to establish a 14-bed intermediate and long-term treatment facility on Enders Island, local residents gathered information about Enders Island in an effort to understand what had developed on Enders Island. MNPA sent its report to the Town of Stonington and the Attorney General of Connecticut detailing their findings and identifying serious issues regarding complinace with local zoning regulations and the intentions of Alys Enders.
In January 2011, in an effort to become a licensed treatment facility, St Edmund's Retreat filed a Certificate of Need Application with the State of Connecticut for a 14-bed intermediate and long-term treatment facility for substance abusive persons. The application was later withdrawn.
In March 2001, prior to building the chapel on Enders Island, Father Thomas Hoar met with the boards of Masons Island Fire District and Masons Island Property Owners Association. At that meeting, he indicated that there would be no increase in Sunday church traffic. He also indicated that his programs would take place in fall and winter. Relying on these representations, the local community did not object to the construction of the chapel.