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I was searching the Manalink Executables for commandline switches and testing them out when I ran across this little anomaly:

Executing "Magic.exe" from the CommandPrompt or a BatchFile will deactivate the sound.

No switches are necessary. This only seems to be the case for Manalink v3.0... v1.32 and v2.0 are unaffected. Can anyone confirm this behavior? Is this intentional? Either way, it could certainly prove useful.
Well, it seems that I'm wrong. In my zeal to remove all unnecessary files from the Full Download, I'd also removed the MagSnd.dll file... which apparently is indeed necessary. My guess is that Win7 somehow found the file when I clicked the executable, but not when I called it from the CommandLine. Since I omitted files by trial-and-error, I thought it was not needed.

Note to self:
Always call from the CommandLine when testing this kind of thing in the future. ^_^

I searched the executables with a batch trick mentioned here. It lists some junky-stuff, but also yields these rather valid-looking switches:

/AUTOSAVE
/SHANDSAVE
/MTGshell
/start

The switches are the same regardless of version... but they don't appear to actually do anything. Sad.
I've attached a .ZIP containing the STRINGS.EXE utility (from SysInternals) and a tiny FindSwitch.cmd file, if anyone would like to check them out.

Well the switches work, however unless you study the code you won't know what they do as they're very under the hood.

Example:
/MTGshell - everything is run under mtg.exe ("Magic: The Gathering") process