Not all flights we book are booked in Amadeus. Sometimes we use online-only airlines who don't allow booking in Amadeus. This can be tricky because these flights can show up in an Amadeus search, so you have to be careful.
The three main online airlines we use that CANNOT be booked in Amadeus are Jetstar, Scoot, and AirAsia. Both airlines operate mainly in Southeast Asia, the South Pacific, Australia, New Zealand, China, and Japan.
There is a third online-only site that we use, but it's not an airline. The site is called Mystifly, and they are good for booking low-cost European airlines that are not in Amadeus (EasyJet, Ryan Air). They are also good for checking various flights in Asia.
Each website is different and has different rules for booking the flights.
1. Jetstar: We have an account with them and book directly on their website, then we GK (ghost book) the flight into the main PNR of our customer. Watch this video to see how to book a flight on Jetstar.
2. Scoot: Same process as JetStar above. We have a doc here that walks you through the process. Watch this video to see how to book a flight on Scoot.
3. AirAsia: Cynthia (or whoever else might ticket an order) will book AirAsia flights for you, but as an agent, you still must go to their website to price out the flight, then GK (ghost book) the flight into the main PNR. Watch this video to see how to add a flight on AirAsia.
4. Mystifly: Check out this doc (which has videos) for instructions on how to use Mystifly.