It sounds like something may have glitched in your Start11 configuration or possibly reverted to a different layout. Here are a few things you can try:

1. Reset the Start11 style manually:
   Open the Start11 configuration tool and reselect the Windows 7 style and substyle again. Even if it appears selected, try reapplying it — this can sometimes correct layout issues.

2. Check for updates:
   Make sure you're running the latest version of Start11. Updates often fix bugs like missing commands or layout problems.

3. Customize the right-side panel:
   In the Start11 settings under the Windows 7 style, there should be a section to manage what appears in the right-hand column. You can re-enable things like the Run command, Search, and administrative tools from there.

4. Backup and reset configuration:
   If nothing else works, try backing up your current settings (if possible), then reset Start11 to default settings and reconfigure from scratch.

Let me know if that helps — happy to dig deeper if needed.

I had concluded that the software was corrupted and tried to uninstall it, but it couldn't be found, so I reinstalled it and rebooted. The problem went away. 

Thanks for your reply anyway.