It is not darkly enigmatic, nor particularly profound, and a dictionary search of any confusing word(s) should make it clear to you. Trust yourself.
Part of the interpretation depends on what it's context, but it can stand alone.
Although we are not all in physical pain or mental anguish all the time, we do exist primarily in a state of being ill at ease in the world, of being alienated, “made other.”
A paraphrase might be
Although we are not always aware of our suffering, in reality, we no longer live in deep relationship with our surroundings, but live "apart from them".
If one was philosophizing on our alienation from Nature, it might mean
When we lived in an agrarian society (or perhaps even before that), we had a deep sense of our world, living with (and accepting) nature, including the harm nature can do as a part of the cycle to which we belonged. Our "flight or fight" responses (this is so common it's almost a cliché) were acted upon appropriately. In our industrial and technological advancement, we lost our deep relationship to nature and to suffering, and now find ourselves without a sense of belonging in our world, either the one of nature or the one of our creation.
If it is being used in a context of not being at one with out spiritual nature, one can interpret it in that light. In fact, one can interpret it in all manner of contexts.