Duplicate of Everything after Reinstalling Joplin post Clean Install of WIN 11 Pro

Support
1

Operating system

Windows

Joplin version

3.7.18

Desktop version info

Joplin 3.7.18 (prod, win32)

Device: win32, Intel(R) Core(TM) i7-4770K CPU @ 3.50GHz
Client ID: bf746a02041e476bb56c72e749707c9d
Sync Version: 3
Profile Version: 53
Keychain Supported: Yes
Alternative instance ID: -
Sync target: Joplin Cloud
Editor: Markdown

Revision: ce25482

Backup: 1.5.1
Freehand Drawing: 4.3.0

Sync target

Joplin Cloud

What issue do you have?

After a Clean Install of WIN 11Pro on my primary PC, I reinstalled Joplin. After setting my sync target to Joplin Cloud, I ended up with a duplicate of every Notebook and Note. I didn’t realize the situation and continued to use Joplin on other devices. When using it on my desktop a week later, I saw a duplicate of everything, with a number of notebooks including new notes taken in the space between.

I now need to DeDupe the entire installation. Is there a way to do this other than Manually?

Screenshots

Joplin Screenshot 2026-09-26.png
Joplin Screenshot 2026-09-26.png320×643 23.5 KB

2

Did you import a jex backup when you setup the sync? That would cause everything to be duplicated

3

I'll take your thumbs up as confirmation you did import a jex backup. If that is the case, the simplest way to deduplicate would be to do the following steps on one device only:

  1. Sort the all notes notebook by updated_time descending, export the notes modified after the date which your jex backup was created
  2. Use the Victor plugin to delete everything
  3. Import the original jex backup again
  4. Manually migrate changes from your second jex backup into the imported data set
  5. Sync the changes. Make sure the sync completes before touching Joplin on any of your other devices

Finally sync all your other devices pointing to the same data. Do not import a jex backup again, let the sync transfer the changes