Well, I'd prefer to fix things instead of finding another solution :)
So, first question: does the exe file you produced work, if not istantiated as a service?
If it does, then you should try to track down differences between the environment of services and the one you use: things like libraries/binaries paths, for instance, as well as needed permissions. Try hard to produce error logs, they are your only help.
BTW, is it not possible to start perl as a service, and pass the script as a command line argument? I thought you could do just this, without compiling at all. If you can, then investigating failure causes should be easier.
HTH,
Ant9000