Hi,
You are using two different source providers: ASOBO/MS uses Lido as its data source. We use Jeppesen as our source. Both use different waypoint-ident conventions, so it’s possible that some waypoints are not included in the Lido data due to the other naming convention.
During an AIRAC cycle period, there are a lot of changes in airways, waypoints, procedures, on airports/runways … so when you use an old/outdated cycle to create a flightplan, it is not guaranteed that you can use this flightplan 1:1 in a system with a current AIRAC cycle (independent of the source provider).
Compare it with a car navigation system. Sometimes streets are renamed, moved, closed, or added. So, when you plan a route with an outdated navigation system, you can’t expect all streets, roads, and numbers to be the same … and such navigation systems will not be updated every 28 days.
And last, it can also be an incompatible 3rd-party scenery on your system, which results in this effect (reference FAQ here)
I would recommend checking the 3rd-party sceneries.
I have tested your example from the screenshot - all waypoints are included (at least with the current AIRAC 2604):
Cheers,
Richard