No engineering courses DO NOT count as bcpm. They were not included, nor should they be included in the amcas.
also contrary to the above post, amcas does not change it for you. They have a separate category for engineering I believe.
Bioengineering and biomedical engineering classes do not count.
I took physiology (which is considered biomedical engineering at my school), and it was not counted in my total BCPM.
Trust me, if my engineering classes were counted in my BCPM, my BCPM would be much much lower.