On the first route was any error message displayed? If it said something along the lines of "Leg 3 departure is scheduled before the turnaround time of leg 2 has ended" then it would only insert the first 2 flights.
Keep in mind if you add extra time between flights you can't just add 1 minute between all the flights and have it work out. You need to add 1 minute for the 2nd flight, 2 minutes for the 3rd flight, 3 minutes for the 4th flight, and so on. If you want 5 extra minutes between flights, you have to add 5 minutes for the 2nd flight, 10 minutes for the 3rd flight, 15 minutes for the 4th flight and so on.
If you don't keep up that pattern eventually one of the flights will end up departing before the prior flight is ready. Hopefully I can work on delays soon, so instead of just not inserting those flights, it would still insert them but there would just be a delay applied for whatever time is required.
Keep in mind if you add extra time between flights you can't just add 1 minute between all the flights and have it work out. You need to add 1 minute for the 2nd flight, 2 minutes for the 3rd flight, 3 minutes for the 4th flight, and so on. If you want 5 extra minutes between flights, you have to add 5 minutes for the 2nd flight, 10 minutes for the 3rd flight, 15 minutes for the 4th flight and so on.
If you don't keep up that pattern eventually one of the flights will end up departing before the prior flight is ready. Hopefully I can work on delays soon, so instead of just not inserting those flights, it would still insert them but there would just be a delay applied for whatever time is required.
I am the developer of Airline Enterprise