Extremely sensitive "external changes" detection

[calscks]

my main use case is when there are two mods that have conflicts with each other, say 5 files. I will load mod B after mod A.

 

say both mod A and B are active;

• I try to disable mod B, vortex won't complain anything and deploy, as expected and it should work that way.
• (while A and B are active) I try to uninstall mod B, vortex complains about external changes on that 5 files, says they were "deleted", as vortex assumes when mod B is being uninstalled, the 5 files were removed before actually checking that it can replace the 5 files from mod A. therefore, "save all changes" and "revert all changes" do not affect the underlying structure.
• same goes to reinstall and update, whenever uninstallation is being triggered, the external changes dialog will appear.

[BigBizkit]

The external changes dialogue appearing when it shouldn't is something that is being looked into. You are correct in assuming that that should not be the case (though it is harmless).