Same on me.
The file opened in AnyTxt showed different edition with the current file. So if considering the result inside of AnyTxt, it’s done just right, although it’s not the result what we want.
Based on this, I guess the problem was occured from the index cache, however rebuilding the index won’t work it out.
The problem for me was happend inner of a git repository, which maybe related.
BTW I’ve reinstalled the whole software before I post this, so that’s all information I could offered till next time this problem happening.