tybalt89 showed you how to get the current date in the YYYYMMDD format you need.

use strict;
use warnings;

my $enddate = todate();

while(<DATA>) {
  last if ($. > 1 and $enddate < (split /,/)[1]);
  print $_;
}

sub todate {
  my ($year, $month, $day) = (localtime)[5,4,3];
  return sprintf "%04d%02d%02d",$year + 1900, $month + 1, $day;
}

__DATA__
F12,F11,F481,F55,F989
8204B,20161002,1045.469,test,Y
8204,20170112,1064.848,test,Y
8204A,20170113,1064.505,test,Y
8204B,20170114,1045.469,test,Y
[download]

$. is a built-in variable that counts lines of input. The split function implicitly operates on the current input line, producing a list (or maybe an array), and we take a slice of that to look at the only field we care about, the date in the second column.

H:\perl>perl 1178418.pl
F12,F11,F481,F55,F989
8204B,20161002,1045.469,test,Y
8204,20170112,1064.848,test,Y
8204A,20170113,1064.505,test,Y
[download]

Updated: reduced if () {last if()} to just last if().