I have used perl2exe, but have not paid for the entire version yet, as i have only been testing with it for about two weeks. So far things are going well, but instead of -gui, i have been using the pure perl way of changing binaries from console to windows on this page. Admittedly, i have not used IPC::Open2() with this approach, but it might help you find the uid(0) of your problem.

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"They shall not overcome. Whoever told them that the truth shall set them free was obviously and grossly unfamiliar with federal law."
    -- John Ashcroft