This paper systematically investigates the geometry of fundamental quantum cones, the separable cone (
P+) and the Positive Partial Transpose (PPT) cone (
PPPT), under generalized non-commutative convexity. We demonstrate a sharp stability dichotomy analyzing
C∗-convex hulls of these cones: while
P+ remains stable under local
C∗-convex combinations, its global
C∗-convex hull collapses entirely to the cone of all positive semidefinite matrices,
MCL(P+)=P0. To gain finer control and classify intermediate structures, we introduce the concept of ``
k-
C∗-convexity'', by using the operator Schmidt rank of
C∗-coefficients. This constraint defines a new hierarchy of nested intermediate cones,
MCLk(⋅). We prove that this hierarchy precisely recovers the known Schmidt number cones for the separable case, establishing a generalized convexity characterization:
MCLk(P+)=Tk. Applied to the PPT cone, this framework generates a family of conjectured non-trivial intermediate cones,
CPPT,k.