It looks like you have a few problems with that code. If you want it to work with warnings and strict enabled then:

my $last_4_chars = '0001';
my @all_stores = map {
    # This sas file will seperate the datasets by stores
    # Opens file to write to
    open my $fh, '>', "weekly_${_}_pdf.sas" or die "Cannot open weekly
+_${_}_pdf.sas: $!";
    [ $_, $fh ]
    } qw( 24 25 );

for my $store ( @all_stores ) {
    print { $store->[ 1 ] } <<STORE;
libname bce '/cdw/dept/dss/home_dir/s006258/BCE';
proc sql;
SELECT FILEDATE,RPTSTORE,RPTTEAM,FIRSTNAME,LASTNAME,WTDTRAN, 
    WTDOFFERS,WTDAPPS, substr(WTDOFFERS/WTDAPPS,0,5) as WTD_RATE,
    (case
        when (substr(sum(WTDAPPS)/sum(WTDOFFERS),0,4)*100) >= 1.2 then
+ 'G'
        when (substr(sum(WTDAPPS)/sum(WTDOFFERS),0,4)*100) <= 1.2 and
             (substr(sum(WTDAPPS)/sum(WTDOFFERS),0,4)*100) >= .65 then
+ 'Y'
        when (substr(sum(WTDAPPS)/sum(WTDOFFERS),0,4)*100) < .65 then 
+'R'
        end) as WTD_Color
    MTDTRAN,MTDOFFERS,MTDAPPS, substr(MTDOFFERS/MTDAPPS,0,5) as MTD_RA
+TE,
    (case
        when (substr(sum(WTDAPPS)/sum(WTDOFFERS),0,4)*100) >= 1.2 then
+ 'G'
        when (substr(sum(WTDAPPS)/sum(WTDOFFERS),0,4)*100) <= 1.2 and
             (substr(sum(WTDAPPS)/sum(WTDOFFERS),0,4)*100) >= .65 then
+ 'Y'
        when (substr(sum(WTDAPPS)/sum(WTDOFFERS),0,4)*100) < .65 then 
+'R'
        end) as MTD_Color
FROM bce.yearly_g${last_4_chars}v00
WHERE RPTSTORE = $store->[0]
Order by RPTTEAM
STORE
}

close $_->[ 1 ] for @all_stores;
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