If these are the correct changes to be made from the code you provided....it still does not work. In fact none of the input choices work now.

#!/usr/bin/perl -w

use strict;
use warnings;
use diagnostics;
use Term::ANSIScreen;
use Win32::Console;
use Win32::SysTray;
no warnings 'numeric';
$| = 1; # ADDED

tray();
begin();

sub begin { # START BEGIN

print "-------------------------------------------\n";
print "Please Choose One of the Following Options:\n";
print "-------------------------------------------\n\n\n";
print "(1) EMPLOYEE MANAGEMENT                      \n\n";
print "(Q) QUIT                                     \n\n";
print "                                         \n\n\n\n";

my $input = Prompt("? "); # ADDED

if ($input){
if ( $input == 1 ){
sleep(3);
begin();
}

if ( $input eq "q" ) {
sleep 3;
exit;
}

} # END INPUT
} # END BEGIN


sub  tray {
my $stray = new Win32::SysTray (
'name'    => 'TEST',
'icon'    => 'C:\images\logo.ico',
'single'  => 1,
) or exit 0;
 
$stray->setMenu (
"> &Test" => sub { print "Hello from the Tray\n"; },
">-"      => 0,
"> E&xit" => sub { exit; },
); 

}

sub Prompt {
  my $prompt = shift;
  print "\n$prompt  ";
  my $response = '';

  my $rsel = ''; my $rrdy;
  vec($rsel,fileno(STDIN),1) = 1;
  CHAR: while (1) {
    die "user quit" if -1 == Win32::GUI::DoEvents();
    while (select($rrdy=$rsel, undef, undef, 0.10)) {
      sysread(STDIN, $response, 1, length $response)
        == 1 or die "read error";
    }
    last CHAR if chomp($response);
  }

  return $response;
}
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