Supernovae have been discussed many times before. Some issues:
- In the 20th century, we've got a pretty good idea of what a star is supposed to look like before it goes supernova. There was an announcement a few months ago about a certain star that scientists found that they added to the "about to go supernova" category. One should easily imagine that after living in space for over a millennium, the human race of the ED galaxy would have a much more advanced body of knowledge about stellar evolution and therefore a very, very good idea of what pre-supernova stars would look like - and they'd be able to avoid building permanent colonies anywhere near them. Supernovas aren't like earthquakes or tropical storms or other natural disasters we find on Earth - they're much more predictable. So having a situation where we go "Oh noes! A star is about to explode and we've only got a week to get everybody out!" is very improbable.
- Even our limited 20th century knowledge of stars means we are reasonably sure that there aren't many stars within 1000 LY that are about to explode. They can't just pick a star at random and say "righto, that one's gonna blow next week". Only certain types of star can go supernova. Sol, for example, cannot - it's too small. Even the large blue stars Achenar and Alioth are too small. The OP posted earlier the Wikipedia list of supernova candidates. There's only one star in that list that's within the Bubble and inhabited: IK Pegasi. In-game, this star is known as "HR 8210". IK Pegasi is a Type 1a supernova candidate; this is where a red giant star has matter sucked off it by a close-orbiting white dwarf companion star until the white dwarf star's mass increases past the Chandrashekar Limit, at which point it will explode - but the process can't begin until the star enters the red giant stage. In ED, the primary star is not yet at the red giant stage, and the companion star is erroneously entered as a K-class main sequence star instead of a white dwarf, so HR 8210 can't even explode in the expected in-real-life fashion. Which is unfortunate, as HR 8210 would be a simple system to evacuate: no planetary bases, just a single Ocellus-class station. Slap some engines back on that baby and hey presto, instant evacuation ship. A single CG could have done it.
- As stated, a supernova event couldn't be realistically depicted in ED, because the in-game speed of light is infinite - blow up a star on the other side of the galaxy, and the whole galaxy sees it, instantly, rather than having to wait 65,000 years for the light to reach us. So you can't have an exploding star threatening entire sectors, at least not all at once forcing people to choose which planets to save. The next-nearest inhabited star to IK Pegasi is 10 light-years away; that means the moving-at-nearly-speed-of-light shockwave from an exploding IK Pegasi wouldn't threaten anyone else for at least ten years.
Science: ruining perfectly good sci-fi plots since 1687.
Now, all that being said, there's nothing to stop FD from having the evil Thargoids (or whoever it is the Thargoids are supposed to be running away from) go around blowing up stars using their evil star-breaking technography. That could be both unpredictable and sudden.