My answers will be very simple and incomplete since I have only an interested layperson's knowledge of science. But on that understanding, and on the understanding that we are dealing with physical causes---not purpose--here goes.
The questions above are almost all explained by the possession, gain or loss of energy. An additional factor is gravity.
Water freezes when it loses energy to the point where it cannot remain in a liquid state. The atoms slow down and form bonds to make crystals. (Note that the atoms never stop moving, but they can slow down quite a bit.)
The sun is hot because the pressure of gravity on the sun generates huge amounts of heat. At the core of the sun, the pressure is sufficient to strip atoms of their electrons and initiate atomic fusion; this also increases the store of energy and keeps the sun hot.
Planetary orbits are a consequence of the force of gravity.
Rocks get warm in the sun because they absorb the radiant energy of the sun which is transferred to the atoms in the rock, increasing their energy and therefore their temperature.
I don't know that life did form from rock. I have heard that rock (in particular clay substrates) may have helped to incubate early life, but not that life formed from rock.
Complex biochemistry.
It is probably not so much properties of matter per se, but properties under certain conditions. For example, so far as we know life has only formed in conditions which allow for water to remain in a liquid state. That demands a certain temperature range. Available organic matter seems to be a pre-condition as well.
The next four are beyond me. You will need to inquire of the relevant experts in those fields. However, I doubt scientists would speak of anything suggesting that life "should" form. Only in terms of conditions allowing the possibility that life may form.
Sure there are scientific causes for life to form. After all, it exists. And the whole field of abiogenesis is quite exciting. Here is a recent new wrinkle on the interactions which brought about life:
http://www.sciencedaily.com/releases/2015/06/150601172834.htm