The free energy plays a fundamental role in descriptions of many systems in continuum physics. Notably, in multiphysics applications, it encodes thermodynamic coupling between different fields, such as mechanics and chemistry. It thereby gives rise to driving forces on the dynamics of interaction between the constituent phenomena. In mechano-chemically interacting materials systems, even consideration of only compositions, order parameters and strains can render the free energy to be reasonably high-dimensional. In proposing free energy functions as a paradigm for scale bridging, we have previously exploited neural networks for their representation of such high-dimensional functions. Specifically, we have developed an integrable deep neural network (IDNN) that can be trained to free energy derivative data obtained from atomic scale models and statistical mechanics, then analytically integrated to recover a free energy function. The motivation comes from the statistical mechanics formalism, in which certain free energy derivatives are accessible for control of the system, rather than the free energy itself in its entirety. Our current work combines the IDNN with an active learning workflow to improve sampling of the free energy derivative data in a high-dimensional input space. Treated as input-output maps, machine learning representations accommodate role reversals between independent and dependent quantities as the mathematical descriptions change across scale boundaries. As a prototypical material system we focus on Ni-Al. Phase field simulations using the resulting IDNN representation for the free energy of Ni-Al demonstrates that the appropriate physics of the material have been learned.