question

Here is the code to start an optimization (which is a type of Experiment job) through FlexScript:

treenode exp = node("/Tools/Experimenter", model());

// If something has changed that would change the results of the optimization,
// e.g. an input table, delete the results file.
treenode dbNode = function_s(exp, "getDBConnection");
function_s(dbNode, "deleteFile");

treenode job = getvarnode(exp, "jobs").subnodes[1];
function_s(exp, "run", job);

My guess is that you'll want to add this kind of code to your OnModelOpen trigger, after any import code you want to run, so that your tables will be up to date. Then when you run the model via command prompt, it will automatically start the optimization. Use the On End of Job trigger on the Experimenter to (possibly) export the results and exit FlexSim.