Basic Question #1:

[shickenbottom]

Assuming Tim's numbering convention is what we normally accept (Non-Fed).

Did R2 Pass R3 at any point prior to R3 crossing home plate?

If so, R2 is out for passing a preceeding runner making this the 2nd or 3rd out depending upon the timing of when he passed this runner and when the Fly ball to F8 was caught, and no run can score. The appeal for R2 leaving early would be meaningless in this case.