Same thing happened to me. No ship on the first clear, but got shader and emblem. Second clear on a different week, and got nothing, no ship shader or emblem. I had Ceres Galliot equipped the first time. Second time all of it was in my vault. Wondering if I should break the ship down to see if I can get the Seeker.
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I got all of it on my first character but not my other ones. Got the ship from RNG tho