A dot has a special meaning in regexes, it matches any character except newline. To match a literal dot, you need to backslash it.
Moreover, you probably don't want to remove a dot from somewhere further inside the string, only the starting one. You can add ^ to the regex, it only matches at the beginning of the string.
The final g means "global", it will remove all the occurrences of the pattern. As we only want to remove a single occurrence, we don't need it.
$file =~ s{^\.}{};
map{substr$_->[0],$_->[1]||0,1}[\*||{},3],[[]],[ref qr-1,-,-1],[{}],[sub{}^*ARGV,3]
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