Now I would argue the "nephesh" of Gen.1:21 is not the nephesh in man by saying the soul of man is created in the image and likeness of God. I believe nephesh, at it's core, is consciousness and only in man is that consciousness fully developed. Animals have nephesh, they are conscious. Plants, bacteria etc do not have nephesh, they are not conscious.
I think the image and likeness of God is a reference to the essence of man being invisible (image) and having personhood (likeness). God as the Father (Deity) is spirit but God the Son is both Deity and Humanity (spirit and soul). I think the angels were created in the image and likeness of God too, God the Holy Spirit, hence angels are spirits, men are souls.
I see when Adam sinned his spirit returned to God who gave it Ecc.12:7 and his soul retained the image and likeness but the body now had another law at work in it (a genetically formed corruption Rom.7:23 ) Now, as you said, we are born in Adam's image, flesh gives birth to flesh Jn.3:6 , therefore we inherit that corruption. As God cannot abide with corruption and only He can give a spirit, men are now born without a spirit (keeping in mind I believe the human spirit is generated from God, not simply by God Jn.3:6 )
I don't have a problem with what you are saying here but I don't see how that applies to creating something out from nothing (bara) compared to giving something of oneself, born of spirit. The new creation we are in Christ is not out from nothing, it cost Christ everything nor is it born only (consider the transforming of the mind as well as a new body eventually). I see it's creation a compliation of God's activity.
Some of the verses you quote I believe are referencing believers and therefore they will have a spirit as they are born again. ie.
Job 32:8;
Prov 17:27 but some of the others could be using spirit in a more general sense to describe one's life ie Prov.18:14 Ecc.3:21