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OneDrive File Issues

Fix: OneNote Desktop Shortcut Cannot Be Deleted and Reappears

Bushra ParveenBushra Parveen Sep 27, 2026 869 views

Question details

The user is unable to permanently delete a OneNote shortcut from their desktop; it continuously reappears accompanied by an error message stating it cannot be deleted.

How to Fix a OneNote Shortcut That Cannot Be Deleted and Reappears
Product
Microsoft OneNote
Device & OS
Windows
Scenario
Attempting to clean up the desktop by removing an old or stubborn OneNote shortcut icon.
Observed behavior
The shortcut fails to delete and instantly reappears on the desktop, even though the related notebook is no longer visible in OneDrive or recent files.
Before you start

Verify whether the item on your desktop is a standard Windows shortcut (.url or .lnk) or an actual OneNote configuration folder by right-clicking it and checking its Properties.

Solution 1Recommended

Delete the Shortcut Directly via the OneDrive Folder

Use this method if your Desktop is being actively backed up by OneDrive, causing local deletions to be instantly restored from the cloud.

When OneDrive sync is active on your Desktop folder, local deletions can sometimes conflict with cloud backups. Deleting the file directly from the synced folder via File Explorer often overrides this glitch.

1
Open File Explorer

Press the Windows key + E to launch File Explorer on your computer.

2
Navigate to the Synced Desktop Folder

In the left-hand navigation pane, click on your 'OneDrive - [Your Name/Company]' folder, and then open the 'Desktop' folder inside it.

3
Delete the Shortcut

Locate the stubborn OneNote shortcut in this directory, click to select it, and press the Delete key on your keyboard.

Delete the Shortcut Directly via the OneDrive Folder
Sync Conflict Resolved: Deleting the item from the root OneDrive sync folder ensures the deletion command is properly sent to the cloud server, preventing it from reappearing.
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Frequently Asked Questions

Why does my deleted OneNote shortcut keep reappearing on the desktop?

This usually happens because OneDrive is set to continuously back up and sync your Desktop folder. When you delete a local file, the active sync engine assumes it is missing and restores it from the cloud before the deletion command registers on the server.

How do I stop OneDrive from syncing my entire Desktop?

Click the OneDrive icon in your taskbar, navigate to Settings, select the 'Sync and backup' tab, and click 'Manage backup'. From there, you can toggle off the backup specifically for your Desktop folder.

Can I safely delete a OneNote shortcut without losing my actual notes?

Yes, deleting a standard desktop shortcut (a file ending in .url or .lnk) will not delete the actual notebook data. Your actual notes remain safely stored in your OneDrive account or local Documents folder.