Unfortunately, the NFP self-review return is not available to lodge via digital service providers like LodgeiT. 
The only way to lodge it is to use the ATO Online Servies https://www.ato.gov.au/businesses-and-organisations/not-for-profit-organisations/statements-and-returns/how-to-prepare-a-nfp-self-review-return#ato-Howtolodgeyourreturn


Related link: https://www.ato.gov.au/businesses-and-organisations/not-for-profit-organisations/statements-and-returns/reporting-requirements-to-self-assess-income-tax-exemption/nfp-self-review-return