Wage Deductions in New York State
Under the New York State Labor Law, it is illegal for an employer to require an employee to pay back wages paid for days the employee didn't work.
Section 193(1) of the New York State Labor Law prohibits employers from making any deductions from an employee's wages except those made (a) in accordance with any other law, or (b) for the benefit of the employee and authorized in writing by the employee. Such authorized deductions are limited to payments for insurance premiums, pension or health and welfare benefits, contributions to charities, payments for U.S. savings bonds, payments for union dues and assessments, and "similar payments for the benefit of the employee."
In other words, while an employee may authorize an employer to take away or subtract wages, the clear language of section 193(1)(b) limits the types of deductions to those enumerated and to "similar payments."
In Angello v. Labor Ready (2006), the New York Court of Appeals held that "subtracting from wages a [payment] that goes directly to the employer or its subsidiary violates both the letter of the statute and the protective policy underlying it." The Court then noted that all the deductions authorized by Labor Law §193(1)(b) are either "monetary or supportive," and as such, the term "similar payment" must also be either "monetary or supportive" to be allowed. The "monetary" deductions are all investments of money for the later benefit of the employee, such as deductions for insurance premiums, pension or health and welfare benefits and payments for United States bonds. The "supportive" deductions are all investments used by someone other than the employee or employer to support some purpose of the employee, such as contributions for charitable organizations or payments for dues or assessments to a labor organization.
Consequently, requiring an employee to pay back wages already paid for days off from work does not benefit the employee in any way, and is thus illegal under New York Labor Law. The same reasoning holds for any attempt by the employer to deduct payments from wages to cover the cost of anticipated future use of unpaid leave.
Additionally, although section 193(2) provides that the employer cannot require the employee to make any payment by a separate transaction that would be prohibited as a deduction, in Huntington Hospital v. Huntington Nurses Association (E.D.N.Y. 2004), the Eastern District of New York held that "such overpayments could be sought in a separate proceeding." Therefore, while an employer may not make any deductions from an employee's wages to recover overpayments, employers may seek relief in a separate proceeding against the employee, i.e. an action in civil court.
To limit potential liability, we recommend that all New York employers consult with a New York wage and hour attorney before making any wage deductions that are not explicitly authorized by New York Labor Law §193.

