The use of Lignumis and "Rocket Cargo Insertion"
When a rocket using the custom recipes from Rocket Cargo Insertion is launched, it spawns a new landing ship slightly offset from the original. Which means it creates a mess of landing parts which slowly expands through your base.

Setting:
Vulcanus using the custom rocket fuel recipe
Attainable by placing a regular rocket silo and replacing it with a legendary quality silo, opening contents and changing the recipe by clicking the recipe icon (doesn't appear otherwise)
Make rocket, have satellite auto request rocket fuel, put regular rocket fuel in cargo, launch rocket, and generate landing ship on Nauvis

Mods:
Lignumis Beta: 0.9.7
Rocket Cargo Insertion: 1.0.3

Hey. I'm not sure where exactly Lignumis comes into play. The only change it does to the rocket silo is add noise pollution for the moon Lignumis. I don't think the error lies here.

I cannot replicate the error without the Lignumis mod! I believe it may be due to the specifics around the whole leaving lignumis and landing on nauvis generating a landing ship but I wouldn't know. All i can say is it only works with the recipe from RCI and the presence of Lignumis
Also tested on newest version of LIgnumis, error persists.

Can you provide me a savegame?

of course, lemme figure out how rq. how do you want me to get it to you? - I've never had to give a save file before so idk how srry ^^"
(got the file just gonna send to u now)

You can find me on Discord (on the Factorio server or on my own linked here as "Homepage") and DM it or upload it somewhere and post the link here.

This was fixed in 1.0.5.