Which version of CGI do you have installed? What does it print? Here's what I get, on Perl 5.5.3, with CGI version 2.752.
$ perl
use CGI;
my $query = CGI->new();
print $query->start_html(-script=>[
{-src=>'../assests/bwcheck.js'},
{-src=>'../assests/scroller.js'},
]);
<?xml version="1.0" encoding="utf-8"?>
<!DOCTYPE html
PUBLIC "-//W3C//DTD XHTML Basic 1.0//EN"
"http://www.w3.org/TR/xhtml-basic/xhtml-basic10.dtd">
<html xmlns="http://www.w3.org/1999/xhtml" lang="en-US"><head><title>U
+ntitled Document</title>
<script src="../assests/bwcheck.js" type="text/javascript" language="J
+avaScript"></script>
<script src="../assests/scroller.js" type="text/javascript" language="
+JavaScript"></script>
</head><body>
| 