Since so little is known about the habits of Mesoplodon perrini, and so few individuals have been encountered in the wild, it is difficult to adequately evaluate how many individuals are left and what potential threats (if any) there are to the survival of the species. According to the ICUN, this species has the potential to become caught in certain types of fishing gear, such as deepwater gill nets used for capturing large pelagic fish species. Like other marine mammals, it may also be negatively impacted by navy sonar and loud noises generated by seismic exploration. Climate change may also cause their range to change or grow smaller, but since the specific range of M. perrini has yet to be determine, this assertion is presently based only on conjecture.

US Federal List: no special status

CITES: appendix ii

IUCN Red List of Threatened Species: data deficient