When an Enterprise Application is saved in SquaredUp, a new Management Pack is created and saved into SCOM.
To delete the Enterprise Application, you will need to delete the Management Pack from SCOM.
This can be achieved by following the steps below:
1. Navigate to the SCOM console and click on Administration.
2. Navigate to Installed Management Packs.
3. From the list of Management Packs, select the one you wish to delete and click Delete from the list Actions on the right-hand panel.