Same issues here (Version: 0.46.9 (Universal)). It keeps generating content for files, that it tires to work with later on. However, since all the code blocks show ‘now changes made’ it cannot find any code in the files. Asked about this cursor acknowledges the problem: "There seems to be an issue with editing files in folders that start with a dot (hidden folders) using the edit_file tool. When I try to edit these files, the system reports “no changes made” even though I’m providing valid edits.
This appears to be a limitation with how the editing system interacts with hidden directories. Let me change my approach and use terminal commands instead for files in dot directories."