The Customs, Central Excise and Service Tax Hyderabad-II Commissionerate was formed in the year 1997 having jurisdiction over the Hyderabad District of the erstwhile State of Andhra Pradesh for collection of Customs, Central Excise and Service Tax Revenue and for enforcement of the relevant Acts/Law. The Customs jurisdiction included Hyderabad Airport, Air Cargo Complex, ICD Sanathnagar, ICD Thimmapur, CFS Kukatpally, CFS APTPC and BATCO, Muthangi.

The CBEC (presently CBIC) has re-organized the various formations under it w.e.f 15.10.2014 and accordingly The Customs, Central Excise and Service Tax, Hyderabad-II Commissionerate was also reorganized. As per this re-organization a separate Customs Commissionerate was carved out from Hyderabad-II Commissionerate.

For effective and efficient functioning, Hyderabad Customs Commissionerate jurisdiction is divided into eight formations each headed by Deputy Commissioner/Assistant Commissioner.

1.   Rajiv Gandhi International Airport, Shamshabad

2.   Air Cargo Complex, Shamshabad

3.   Inland Container Depot, Sanathnagar

4.   CFS, Kukatpally

5.   CFS, Muthangi

6.   Inland Container Depot, Thimmapur

7.   Export Promotion Division- which is further divided into 3 circles as Export Promotion Circles- Hyderabad, Muthangi and Thimmapur

8.   Foreign Post Office 

This Commissionerate is headed by the Principal Commissioner who is administrative and Executive head. The Principal Commissioner is assisted by Additional Commissioners/ Joint Commissioners, Deputy Commissioners/Assistant Commissioners, Chief Accounts Officer, Superintendents, Administrative Officers, Inspectors, Executive Assistants, Tax Assistants, LDCs, Head Hawaldars, Hawaldars, Sepoys in the order of hierarchy.