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How come so many chapters have unknown primarchs ?
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Late to the party, but i also suspect that the DNA/genetic material of the primarch's is closely guarded. I'm forgetting the name of the head of the mechanicum but didn't the emperor specifically gift him primarch genetic material so the primaris Marines could be made? That may indicate that the material of more rare and less accessible.
Yea, Belisarius Cawl has stable gene-seeds for all of the Primarchs that he is using to make the Primaris Marines, though he's under orders to only use Loyalist Primarch gene-seeds.
Very few Chapters have a complete stable gene-seed, which leads to a lot of the various quirks. And even the application of the gene-seed isn't consistent which changes things even more. Blood Angels and Space Wolves are supposed to have severe genetic instability for example.