Cardiac disease remains a large cause of death among humans and therapies to treat it remain lacking. Mitochondria is heavily implicated in various critical functions of the cell not limited to the production of ATP. Critically, mitochondria break down across aging and heart also decrease in efficiency in aging. Key factors implicated in mitochondria morphology, such as the mitochondrial contact site and cristae organizing system (MICOS), role across aging remains to be seen in cardiac muscle. To better understand the relationship between mitochondria in heart, we used transmission electron microscopy (TEM) and serial block facing-scanning electron microscopy (SBF-SEM) to quantitatively analyze the 3D networks in cardiac muscle samples of mice at aging intervals. Cardiac muscle showed some breaking down across aging, decreased areas, increased mitochondria, but less fragmentation and wide-spread changes across 2-year aging than previous studies in skeletal muscle. In studying cristae, the inner folds of mitochondria, we observed a loss of morphology across aging. This mimicked what was observed upon CRISPR/Cas9 knockdown of mitofilin, Chchd3, Chchd6 and Opa-1 which showed increased lamellar cristae and fragmented mitochondria while mitochondria length and volume decreased. We are the first to examine mitochondria changes in cardiac muscle across aging. Notably, we noticed differences in skeletal muscle, which we have previously studied, and cardiac muscle that suggests a differential response to mitochondrial aging in cardiac and skeletal muscle. In combination, these data suggest that, in the heart, loss of the MICOS complex may be implicated in the loss of function in mitochondria that is seen across aging.