I'm not sure exactly what you're trying to do here, but you probably just need to just have an explicit index you can manipulate. Does this do what you're after?

my @Array = ('AAA','BB','CCCC','DD','EEEEE','FFF','GGGG');
my $num_of_skip =2;

for (my $index =0; $index <= $#Array; $index++){
    if (length($Array[$index]) == 2) {
        $index += $num_of_skip;
    } else {
        print "$Array[$index]\n";
    }
}
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