This is mentioned in the FAQs.
https://forum.empyrion-homeworld.net/t/11-hws-hints-faq/4403/2
My blueprint didn’t spawn!?
If you start / finished the blueprint on Computer X and you logout and play Empyrion the next time on Computer Y be aware of the blueprint loss because the blueprints are saved locally for the proper Computer (X in this case).
If you want to use 2 PCs make sure to transfer the data.
Nothing we can do about it.