dendron has a file watcher (vaultwatcher) that runs in the background to see if new files are added outside of Dendron and index it accordingly. it's supposed to ignore this when dendron itself adds new files but we weren't doing that properly for the doctor command which means dendron is trying to index the same file twice. this is being fixed in this weeks release. i'm going to message you the link to an early build so you can test it out and see if you still see the same issue