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In a project with 2 configurations (<default> and LIVE), when I change the Remote Connection for the <default> config, the LIVE config gets updated with the same change. I need to be able to specify different connections for different configs, and that is how it used to function. I believe this is a bug and was introduced quite recently.
Apologies, I misunderstood what seems to be happening. Changes to a configuration are not being propagated to other configurations. Instead, what seems to be happening is that when I change configuration in the project tree by right-clicking on the project and choosing Set Configuration, the synchronisation feature does not change the Remote Connection. So in the case I initially described, if the configuration is set to LIVE and uses the "_live" Remote Connection, when I change to the <default> config, Synchronise still uses the "_live" connection, even though the <default> config is set to use the "_dev" connection. Please let me know if you require further clarification or if you want me to open a new bug report with the correct description