Do you get the same output from

C:\temp> pwd; pwd
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as you do from

C:\temp> perl -e 'system("pwd; pwd");'
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Do the same check for:

C:\temp> echo 1; echo 2; echo 3
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From Perl, you may need to put each command in an array and use "system $_ for @cmds", e.g.

$ perl -e 'my @cmds = ("echo 1", "echo 2", "echo 3", "pwd", "pwd"); sy
+stem $_ for @cmds'
1
2
3
/Users/ken/tmp
/Users/ken/tmp
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[I don't have Perl running on any MSWin platform, so I can't test this for you.]