While amounts withheld under certain salary reduction agreements with your employer are generally excluded from gross income, such amounts may have to be included in wages subject to social security and Medicare taxes in the year they're withheld.
Examples of salary reduction agreements would be Health flexible spending arrangement (FSA), Archer MSA contributions, Long-term care coverage, etc.
TurboTax will ask you questions about any contributions to health, retirement or savings accounts through the tax year. Enter the W-2 information exactly as it appears and TurboTax will guide you towards completing the return.