Alright, I fixed it, in case someone gets the same problem in the future;
Simlink works, everything looks works but when it’s come to choose sids and stars it was default points by asobo which means cannot use any waypoints from simbrief in any route.
What cause the problem;
I was using single language Windows version and wanted to upgrade it to pro version. While doing it also I changed the language. And after upgrade completed, navigraph didn’t work.
My windows, steam and navigraph was installed to C drive which is where windows updated.
Msfs was on D drive
I reinstall navigraph but didn’t work.
I reinstall the game and didnt work
I reset C drive to factory settings and reinstall navigraph, msfs etc than it worked. Just be sure all profiles and configs of msfs deleted.
I believe while windows updating it delete something or change the path of a folder. Or maybe it happened because it was not an ordinary update but upgrade to another version of windows.
Anyway thats the deal, in case someone get funky because of the same problem. Thats the solution