Hello George ,
Let's try the following. It seems that the configuration is not updated. To enable the search module - go to ~/App_Data/Sitefinity/Configuration/SystemConfig.config
file and modify the search module entry as bellow:
Then restart the application this should reinstall the search module. Check if Administrations>Search and Indexes
option is visible.
To fix the transperant menu:
1. Download the attached file
3. Backup your Project
2. Extract the file in \ProjectName\Sitefinity folder
3. Login to Sitefinity as admin
4. Browse the WebForm1.aspx page (http://localhost/ProjectName/sitefinity/WebForm1.aspx
5.Then restart the application this should fix the menu
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