___What versions of Windows are you using? What non-Windows initialization program is trying to launch from it by the way? When looking at mine, I have the std. command.com locations, windows directory, windows boot directory, prompt, temp, and paths. There should be nothing else and if so, you can edit your autoexec.bat file directly.
windows98se. I purposely deleted the entries to see if that could be the problem. Still, in the msconfig window, the autoexec.bat window shows a little pencil icon in the left margin. When I uncheck the autoexec.bat checkbox in the General window under selective startup, MSConfig still reinserts the checkmark when I click apply. I need an exorcist.
I had similar problems. Even when msconfig showed the file as empty, DOS programs would still run.
I then went and cleared the contents of autoexec.* files. msconfig once gave me an error because it was looking for *.tsh. In other words, it may not be using the BAT files themselves. It may be using autoexec.tsh, config.tsh...
Once you clear those files, you will find that Windows boots a LOT faster.
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