The "Exemption from Furnishing Returns Act" typically applies to the entire organization, rather than individual branch offices. However, the specific laws and regulations may vary depending on the location and the specific nature of your business.
In India, the Companies Act 2013, Section 92, provides provisions related to the Annual Return. As per this Act, every company is required to prepare an annual return in the prescribed form, including companies with branch offices.
As your total employee count is more than 1000, it is recommended to ensure compliance with all appropriate labor laws. Regardless of the number of employees in the branch office, it is part of the larger establishment and generally would not be exempt from the laws that apply to the whole organization.
However, it's important to consult with a legal expert or labor law consultant in Mumbai to get the most accurate and relevant advice for your situation. They can provide definitive guidance based on the specifics of your business and the latest laws and regulations. This is particularly important when dealing with complex labor laws and large numbers of employees.
Remember, staying compliant with labor laws not only avoids legal issues but also contributes to a better work environment for your employees.