Dear Brooklyn Tenant:
Are you the "applicant" double-charged for an application fee by the managing agent and Board, or Real Estate Broker?
Improper conduct or unethical conduct by a Real Estate may be support a complaint against the broker.
The charge to an "applicant" may be non-refundable. The application should state your rights in relation to the application and to the return of fees, if entitled.
The answer provided to you is in the nature of general information. The general proposition being that you should try to avoid a bad outcome if you can.