Short answer: your registrations are distinct persons, so moving goods between them is a taxable supply. And since 1 April 2025, credit on common input services must be distributed through an ISD registration — cross-charge is no longer an available substitute for that purpose.
Distinct persons
The idea that trips people up is simple and unintuitive: two GST registrations under one PAN are two persons.
A supply between distinct persons is taxable even without consideration. So a transfer of goods from your Karnataka plant to your Tamil Nadu warehouse is a supply, requiring a tax invoice and attracting tax, which the receiving registration generally takes as credit.
Over the chain it is usually cash-flow neutral. It is not, however, optional, and treating it as an internal paper movement produces a registration that has been supplying without invoicing.
Valuing the transfer
Valuation between distinct persons follows prescribed rules, with one relief that does most of the practical work: where the recipient is eligible for full input tax credit, the value declared in the invoice is accepted as the open market value.
That is what makes routine branch transfers administrable — you are not required to construct a market price for work-in-progress moving between your own plants.
The relief depends on full credit eligibility at the receiving end. A branch with exempt output, or with credit blocked for some other reason, falls outside it and the transfer has to be valued under the general rules. This is worth checking rather than assuming, because it is exactly the situation in which a business carries on declaring a nominal value.
The ISD change
This is the more consequential shift, and a lot of multi-state businesses have not acted on it.
Before 1 April 2025 there were two routes for getting credit on centrally procured costs out to the branches that used them:
- ISD — a separate registration receiving the invoices and distributing credit.
- Cross-charge — head office recovering the cost from branches as a supply of service, with tax charged and credit taken.
Practice varied enormously, and so did outcomes.
From 1 April 2025, distribution of credit on common input services through an ISD registration is mandatory. The choice is gone.