Coupled XY model systems are of significant theoretical interest, in particular 3D systems with disordered interlayer physics. We realize a set of coupled quasi-2D pancakes of $^{87}$Rb in the presence of disordered inter-layer coupling. This is achieved with our high bandwidth arbitrary lattice to obviate restrictions on the dimensionality of disorder with speckle-generated optical fields. We identify multiple phase crossover regions that comport with the existence of a pair of intermediate Griffiths phases between a thermal state and the emergence of bulk 3D superfluidity.