I will try to answer some of your questions:
Make sure that when you model your shear/ core wall in ETABS, you have meshed it well, so that the wall has enough well distributed support along the length. Further reading..
1. Can I model a raft like this with beams (12" x 72") under all columns (42" x 42") & (36x72") under core walls (24" thick); not inverted beams but beams with top flushed with raft top
Yes, you can; raft is an inverted slab!
2. Do the slab elements between these beams will have a soil support also assigned to them?
Yes they would. Assign them. Further reading...
3. when we define slab properties do I have to tick the " thick plate" option or not. What is the difference?
Generically, thick Plate should account for shear deformations in your raft/ mat; Increase your moment and shear. I would suggest you to look into SAFE manual to see the exact difference. If in doubt, keep it checked.
4. What is difference between slab types options? slab? footing? mat?
Is your question from a software point of view or general?
4. How to I assign wall supports in safe v8. By placing beams of above property on my raft slab & assigning a wall/line support to them (Kv x width of beam) or Assigning null property to beams and use safe v8 option in which it calculate support stiffness from its size. Kv is the vertical sub-grade modulus.
I wouldn't bother assigning any supports to beams. Would just assign area springs to slabs and run it.
5. How do we detail thick rafts. Do we provide mid layer of steel. if so can somebody point a reference book or source on how to calculate it.
There is no hard and fast rule and things depend on how thick your mat is. Mid layer can be provided for very thick mats. I have also provided say #5 @ 12" c/c if the mat is very deep for shrinkage control. Make sure you provide skin reinforcement on the sides of the mat and horizontal perimeter bars around it.
You will always get areas of high stress under high loads. You can neglect some of the high concentrations by judgement. Also, your mesh size will effect your results and avg stress values.
Good Luck!