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When you have a Azure Hybrid Connection setup the wrong way, you can delete the connection trough the UI but then the Hybrid Connection Manager still knows the connection.

If you for example are moving things around and you would like to keep the connection within the UI you will have to use PowerShell to alter the connections.

All connection strings needed can be found within the Azure Portal

Adding a Connection to the Hybrid Connection Manager

Add-HybridConnection -ConnectionString [ConnectionString]

Get all configured connections

Get-HybridConnection

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or with specific properties

Get-HybridConnection | select -Property Uri

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Get a specific connection

Get-HybridConnection -Uri [URI]

or

Get-HybridConnection -ConnectionString [ConnectionString]

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Remove a specific connection

Remove-HybridConnection -Uri [URI]

or

Remove-HybridConnection -ConnectionString [ConnectionString]

Update connection string

Update-HybridConnection -ConnectionString [ConnectionString]

 

ref: Microsoft Information