Spectrobes: Beyond the Portals has a much different mineral system as compared to its predecessor. Instead of boosting the stats of a Spectrobe, you boost the Minergy amount. The mineral types are also different, each one providing more Minergy for a particular property of Spectrobe. The basic types are Coronium, Aurorium, Flashium, and Dark Minerals. As logic implies, Dark Minerals are more effective when used on Dark Spectrobes, and the following is also true for the other 3 types.
Certain spectrobes, such as Gejio, Mossari and Zyra, have enhanced mineral-finding powers that cause certain minerals, like Chroma minerals, to become less rare, and appear to make more valuable minerals appear in Mystery Stones that contain valuable minerals. It is unknown if this makes minerals more common overall. Rare minerals also appear to be easier to find if the player has at least one of them in the case at the time of entering the area, but this has not been confirmed.
At any time, the maximum amount of minerals that can be owned at a time is 99 for each type, including the cubes.