Hey, @Napther was the blocks when you went up to the planet parts smaller than the blocks of your ship or what?

Ehm, for me he described the fact that:
A planet of R250 for example would throw the same plates as a planet of R130
like there were default plates thrown or cut to some size.

Not actually smaller but their visial sizes are in no relation to the real planet.

I experienced this bug today and yesterday, I've included the client logs that were created around the time I blew the planets up.

Like @Napther, I used logic to fire my weapons at the core. I used two simple clocks (one to fire cannons and the other to fire beams). I got a null pointer exception a few times (two if I recall correctly), one of them occurred right after turning on my logic clock while pointed at a planet.

This is the craft I used:

I'm not sure if this is related but sometimes planet segments stick together after the planet blows up:

The screenshots below are of planet plates from a planet I blew up today. I fired a 30x30 61x61 grid of salvagers at each for a few seconds for a sense of scale.

The effect also happens Vice Versa, a R50 planet seems to revert to something close to R70-100 after logic-based detonation and timing the warp to coincide with the Sector Removed From memory time (default 20s)

I had that a while ago too. I used the explode command for this one. Just to add that it might not be linked to the ship destroying the core having logic controlled systems.
Its much easier to notice when there is a city on the plate though.

Plate before blowing up:

Same plate after blowing up:

Not sure if it can help. (I took those around the time the issue was first reported, but I was working on another planet explosion related issue at the time. And the issue was rejected before I could add anything. )

This issue is so rare, that it may be related to save files.

Have any of these servers that have had this issue wiped? and fully deleted their world seed code?

Furthermore, If someone is able to reproduce this affect, they should provide their world file (delete any ships and station designs you don't want public before doing so.)