There is no substitute for live cell imaging in the investigation of the kinetics of subcellular biology. Here, we enumerate a protocol to visualize fluorescently-tagged mitochondria, NEMO, OPTN, and p62 during the cellular response to mitochondrial depolarization. Because live cells are sensitive to photo-damage, we used low laser power and short exposure times in our confocal microscopy system. Even with minimally damaging parameters, we were able to collect high-content data that we subsequently analyzed. With this technique, we showed that NEMO and OPTN, despite containing highly similar domains, were recruited to damaged mitochondria with less correlation than NEMO and p62. Furthermore, live imaging of NEMO occupancy on damaged mitochondria was a necessary complement to our parallel fixation studies. Since fixation introduces artifacts, especially in samples with concentrated proteins like those in mitophagy, results from our live cell imaging corroborated our findings in fixation studies. Our reporting of these results would not have been possible without real-time, live cell imaging.