It all comes down to certain people trying to answer the question with an erroneous first premise. They start off well enough in asking the question, "how did life begin?" However, they then use as one of their first assumptions (whether implicitly stated or implied), that there is no God. They then work backwards from the known (how life exists today) to the unknown (how life arose in the first instance). That's fine, and for a while meshes pretty well with the theories they've developed, namely, evolution.
The problem comes in when they try to complete the logical chain. If you begin with the assumption that "there is no God," then by definition, you need to develop a method which includes an abiogenetic method for life first arising. So therefore, when confronted with the reality of enormity of that challenge, the logical conclusions they need to resort to range from the mildly improbable (sure, it's a huge longshot, but hey, people win the lottery, don't they?), all the way to the fantastically contrived (in an infinite number of universes, life surely arose on one of them... in short, the "infinite number of monkeys on typewriters producing Shakespeare" argument).
For all intents and purposes, it's only common sense to say that life did not arise by means of abiogenesis. The odds of it are simply too great. A common sense man would say that life came about by God - "God" in the more classical, deist sense of a force or power outside of man's understanding. Note, i didn't ascribe any active intelligence, morality, or religious belief system on that concept of "God" that i just descibed. A belief in God (in the sense of the undescribable higher power) is a very seperate belief in the "God" of a particular religion. Saying can say "i do not believe abiogenesis created life, therefore that leaves God," is not the same as saying one endorses a particular religious belief. It's simply a shorthand confession of the obvious - that we cannot, due to our limitations, know how life arose, therefore, we use the common term "God" to ascribe its beginnings, again, the concept of God being that of the force or power outside of man's understanding, not of a religious God to whom prayer is due (although that depends on your own belief system, and is each man's choice, IMHO).
Now, where the problem for many lies, is that they don't want to open the door to theist beliefs at all, and have to even think about the concept of God, which means that man (and them, by extension) are limited beings who will never be able to answer certain questions. That, to most, is the bigger and thornier problem than even debating mere religious beliefs... they don't wish to think of themselves as finite beings. Instead, they get hung up on the moral aspects of the religious nature of God, i.e. whether "God" has an active intelligence and/or an active role in intervening in the universe. They want to make the argument out to be one of a certain belief system (normally Christianity) and that religion's concept of "God" is incorrect, rather than confront the argument that they are advancing theories so contrived as to make themselves sound like total idiots.
Now tell me, which sounds like the greater intellectual sloth and dishonesty, saying that life came from another planet on rocketships launched by alien beings, or that a force and power outside of our ability to understand, which we'll call "God" for shorthand, created life?