Hi Martin,
It's still not clear (to me) how you update the PF3 database
I think X-Plane uses pretty much the same method. To update my PF3 database I do what I did in FS9 (as far as I remember: I have only flown XP11 since 2017): Option#1 => Rebuild PF3 Database => check all but the first box => point to runways.csv when asked ... and off it goes.
With PF3 you MUST run the MakeRwys utility, which extracts all the relevant data from the sim and produces the files required by PF3.
The 'solution' would be just not to use PF3 when I fly to or from VOVZ, but I should ask a more general question: when any airport has its ICAO code updated (not a rare occurrence of course) and PF3 is still looking for the old one, how do you update things so that PF3 uses the new code and no longer looks for the old one? I thought I had a link to how to do that somewhere, but I seem not to...
It doesn't matter if an ICAO is changed in the RW, PF3 only knows what is in the simulator, via MakeRwys. There's no way to change this in PF3, you would have to change it in the sim.
My guess is the file containing the ICAO code in question is in the PF3FSXData.dat file, which you cannot change with a text editor
Please attach your flight plan so I can see if it works here