If your company is engaged in any kind of manufacturing activity using power, and since the strength is 25+, you come under the purview of the Factories' Act. Therefore, you do not come under the Shops & Estt. Act.
Labour Officer can and will visit your office and ask for documents - Muster Roll, Wage Register, Salary Slip, Inspection Book, etc. and may interview a couple of workers privately (not in the presence of the employer or his representative).
The Inspector of Factories (now Director of Industrial Safety & Health) may also visit and demand for the same set of documents including the Factory Licence.
You can get a complete list of documents required to be maintained from the net.