ok so for my purposes this should work:
Code:
var FileName = file.name.split('.');
var Filename = new File(decodeURI(outputFolder) + "../" + FileName[0] + ".jpg");
var testFile = new File(decodeURI(outputFolder) + "../" + FileName[0] + ".jpg");
var doc = activeDocument;
if(win.panel0.panel2.ResizeCheck.value) FitImage( parseInt(win.panel0.panel2.Width.text), parseInt(win.panel0.panel2.Height.text) );
if(win.panel0.panel2.Action.value) doAction(win.panel0.panel2.ActionName.selection.text, win.panel0.panel2.ActionSet.selection.text);
if(Filename.exists) testFile.rename(testFile.name.slice(0,-4) + time() + ".jpg");
SaveForWeb(Filename,parseInt(win.panel0.panel1.qual.selection));
app.activeDocument.close(SaveOptions.DONOTSAVECHANGES);