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Setting the GCS mode as default has hidden side-effects. Most notably that the connection is considered a valid datalink, and thus affects datalink failsafes in Autopilots.
When used on-board, this is an unwanted side-effect. While you can configure this, the default is set to the "less-safe" option, which could leave a careless user in the situation where datalink failsafes get disabled unintentionally.