GlikeG OK, let us first figure out the reason for this behaviour as this does not seem normal, specifically this part:
GlikeG Moreover, the application doesn’t read status data from the previously processed folders, but by mistake - it was removed and re-added
I guess this is the core reason. Program scans for changes and then it looks for the program that there were changes and it starts scanning changed files. In the normal situation it would just quickly scan within couple minutes that there are no changes and moved on with other tasks.
However, program would not just scan the same folders twice. Something actually had changed. Do you have any ideas what changed with your files/folders?