Actually for your experimenter it should be fairly straight forward. For each of your resources it looks like the number of resources is referencing a table value. So in the experimenter you can just add a new variable for each of the resources you're looking at, and just have the variable reference the table value. (For example with your Physicians, simply click on the green '+' sign to add a new variable to the experimenter, and select Value from a Global Table. Then pick your table name, "number of physician," and the row and column number.)
If any of your resources are not pulling from a table, what you may want to do instead is create that value as a global variable or a Process Flow variable, and have the resource reference that number. Then in your experimenter you can create a variable that references the variable you created.
Finally as for you ultimate goal of finding the best throughput. You could of course run several scenarios in the experimenter till you find what you're looking for. However, FlexSim also has a tool called OptQuest, which is designed to find an optimal set of scenarios based on whichever criteria / variable you're trying to achieve. I unfortunately am not as familiar with OptQuest, so you'll want to read up on it in the documentation. (It's found under the "Optimization in Flexsim" section of the manual.) and of course you can always ask people here on the forums for help.
