Error metadata loading was interrupted because of data fetching issues

I perceive it as the SCT bug unable to proceed in case the collation of a database is different from the server instance.
This is because I see this error in the log:

Error executing 'get-server-config' query: com.microsoft.sqlserver.jdbc.SQLServerException: Cannot resolve the collation conflict between "SQL_Latin1_General_CP1_CI_AS" and "Latin1_General_CI_AS" in the equal to operation

So my server was on the SQL_Latin1_General_CI_AS, but the database on the Latin1_General_CI_AS collation which is a valid setup in my view. Alas, the tool can't support this simple case.
Remedied by

ALTER DATABASE <name>
COLLATE SQL_Latin1_General_CP1_CI_AS;