Chris, you need more samples, and attributes that are different between samples.
Scan the powder again 3x as a New Sample, then again 3 more, then again 3 more.
Perhaps with different temperatures / lighting conditions.
Then scan a different powder similarly. Now you have something that SCiO can model.
I may have the wrong understanding of what you have done, but if you create a Spices collection, and only have 12 scans of black pepper as one sample, it is impossible for SCiO to create any model. You need multiple samples and multiple materials.
I hope that helps.