I don't think there's any way around it: the way Multimedia Fusion games work, the stdrt.exe file is created every time you run the game, and it's deleted when you quit.
Depending on which antivirus software you have, there may be a way to "whitelist" this file, add exceptions or something like that; I'm not an expert on that though. You could also run the game inside a virtual machine, but I guess that'd be a bit too much for just a game.