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After some trail and error I discovered the “Slide Tool”, which makes it possible to move a single clip without loosing the transition connected to another clip.
I updated Premiere to 9.2 and now I can save transitions presets, and drag them from the Effects panel to the timeline!
However, it’s still not possible to right click Custom Presets and turn them into Default Transitions, as they are not inherently “transitions”. Anyway this helps a ton convered to previus versions.