"John
That is the point, I put stint 1 as inters and I set the "If it stops raining, after 5 laps change to Hard tyres" so in theory I should qualify on Inters no matter what
No the system doesn't work that way. When rains stop before qualification it will automatically switch you to the your dry compound choice set in your weather strategy. the duration of the stint only works when race has started.
So if you really want to qualify on intermediate, you should do as Harrison said.