" The majority of the people of Honduras supports what happened, which seems like the more important figure. "
You have no base to that claim. I live in Latin America, and I can tell you that every single person I've talked about this with is profoundly concerned, from left to right.
And, again, the military can't take the President out, there is (or there should be) a due process to remove a President, and I hope the military takes no part of it, unless when the men has already been effectively withdrawn from his charge, but won't leave.
The military took it upon themselves to decide that what he did was not only wrong, but warranted him losing his position and being exiled in his pijamas.
When the military is allowed, and even encouraged, by people in political positions, to act this way, the next step is the military taking upon themselves to choose wich way the country should go, wich moral should rule us all, and how that moral and views should be enforced.
My country has had 30.000 deaths the last time the military was asked to intervene in such a way.
Honduras' toll so far is much smaller, but things are just starting there.