Can my travel agency software handle more than one branch office and keep the sales for each one separate?

Yes, most travel agency software can handle more than one branch office and keep the sales for each branch separate. The usual way this works is that every branch is set up as its own unit inside the same account, and every staff login is tied to the branch that person works in. When a booking is made the system records which branch it came from, so the sales, the payments and the commission sit under that branch instead of going into one big pile.

What each person sees then depends on who is logged in. A staff member at one branch normally sees only the bookings made by that branch, while you as the owner see everything and can compare one office against another. Many systems also let you give a branch manager a middle level of access, so that person can see the whole of their own office but nothing belonging to the other branches.

Where this gets less straightforward is money and settings. Some setups let each branch have its own markup, its own payment account and its own invoice layout, while others keep those things at company level so every branch shares them. That difference usually comes down to the plan you are on and how the software was built, so it is worth asking rather than assuming. The same is true of reporting, because a system that records the branch on every booking does not always split the accounting reports the same way.

Before you commit, write down the few things you really need kept apart, such as staff access, sales reports and invoices, and check each one against what the software actually does today.