Here is a
world.x2 file (1.3MB) from a save with the warrior's guild and everything to the north explored, the branch and herb beside the tree, Boratus' secret entrance opened and the orc camp gate open.
I had not been to the dwarven halls at this point (or the stalker cave, etc), so the mine entrance will be sealed.
It would not hurt anything to replace the world.x2 file, but it would not help much either (unless you left stuff on the ground you need). I had to redo a bit of the game to get the herb and branch on the ground with the two locations opened, and didn't bother picking up any dropped loot. Items with random properties will probably appear corrupt when you look at the description, since those properties are stored in a different file. It shouldn't hurt anything to just ignore these few items, but replacing your old world.x2 file would eliminate them (in addition to re-sealing the opened locations again), assuming you do not pick them up.