IANAWE (I'm not a windows expert) but it seems to me you need to run a .bat script trough an interpreter. Have you tried sytem("cmd $batchfile") or system("command $batchfile")

If this doesn't help, can you specify what you mean with When it executes in the script it acts as though it has executed but in reality it hasn't - maybe with a small code example?

-- 
Joost       downtime n. The period during which a system
            is error-free and immune from user input.
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