These are good points.
As soon as information that is not a link type or link label is added to a link (notes, attachments etc), the information should persist. In other words, it shouldn't be easy to delete or lose the information just by unlinking the connected thoughts, or re-linking them. Also, it should be searchable. So far so good. Now it gets dicey. When I started thinking and trying to write about an interface/method to re-connect links to different thoughts, and one that was relatively understandable to a non-power user I started to get a headache. Designing this in the current framework would be a challenge. Just look at the pre-9 version of how to adjust link types. It was hidden and rather hard to explain. Now think about trying to designate one end vs another end to an existing thought, but only when a link is selected and in a way that is easy to tell that it's not a thought to thought connection, but a link to thought connection. I'm not saying it's not possible, but I think it's non-trivial to implement in a way that is readily understandable and useable by non-power users. Of course, I could be completely mistaken and the answer is staring me in the face. Update: Of course, now I've typed this post, I realized that Advisor included the resolution in his already. If you hold down a modifier while selecting a gate, you could be modifying the link instead of the thought connection. For example, you hold down alt and click the child gate of a thought. You are now dragging the link between the parent and child thought from the parent end. You can now either drag it to an on screen thought and link it, or type the name of the thought to replace the parent connector. If there's already a link between the two you can choose to replace it or undo. So yay me for reaching reading comprehension 101! The end result I think is being requested here is to easily preserve the information, so another option may be transferring the information to a different link. Perhaps highlighting one link, ⌘+c (or ctrl+c) to copy it, then select a different link and ⌘+v to paste, essentially pasting the information from one link to another. I'm not even going to try to think about having multiple connections between the same thoughts, otherwise my brain tries to give my body advanced notice that it's about to crawl out of my ear and go to Bermuda for a bit until I stop. U
pdate: Yup, still happening.