abiogenesis defines a random unplanned process
1) The assumption that it would have to be a "random process" is a myth. The laws of physics and chemistry which the Bible says God created are NOT random at all. They work in particular ways under particular conditions.
2) To rightly call it "unplanned" is to deny the Bible's claim that God
intended for various events to take place. (Or are you saying that God has no role in some events taking place?)
...where somehow non-living atoms take it upon themselves
It sounds like you are anthropomorphizing non-living matter. Non-living atoms do not "take it upon themselves" to do anything. The laws of physics and chemistry act to bring about various results. Those are not "forces of volition and agency", although many would agree that God is the ultimate cause behind them.
there is a big difference between these two ideas
Perhaps, but so far you have yet to establish that difference.
primordial soup is not bad - it just has an extremely low probability of happening
The Bible says that God is in no way impeded by "chance". For example, "the outcome of the lots [as in dice] are in the hands of the Lord." So to argue that what
you perceive as having "an extremely low probability of happening" means that the events couldn't have happened is illogical. Of course, other than your personal intuition, you haven't provided any basis for a "low probability." But if the laws of physics and chemistry operated as we know them to operate, the results which those laws produced were not random and therefore could not be automatically assumed of "low probability."
Science is naturalistic by definition. (It makes no statements about the supernatural or God, either pro or con, because it lacks the tools and procedures in the scientific method to make such statements possible.) Therefore, to claim "the dust of the ground" in the Bible is associated with God while the abiogenesis hypotheses investigated by science
do not mention God and thereby rule out God tells me that you do not understand how science operates.
You could just as easily claim "The Theory of Gravity is contrary to the Bible because it implies that masses attract one another randomly because they take it upon themselves to do so. But in the Bible God does everything. Therefore, the positions are very different and in opposition." Are you making that claim? Or do you only apply these criteria to abiogenesis and not other phenomena in science?