In my experience, being a biomedical engineering major helped me in the application process. Essentially it helped me stand out from the rest of the majors out there. Med schools do know the rigors of an engineering curriculum, and they will appreciate your accomplishment especially if you've done well.
In addition, you should also be able to articulate why you chose to study bioengineering or biomedical engineering during your interviews because more often than not, they will ask you about it. Hopefully you have had some research experience in the field as well -- that is always a plus.
Keep in mind, however, that med schools do indeed want to see your humanitarian side. They want to see that you've investigated the medical career by getting exposure to medical environments by volunteering in a clinic or shadowing a doctor.
All in all, though, being successful in a biomedical engineering program shows that you have the analytical capability of being a doctor, and it will only help you. Hope this helps.