Isn't it easier to just switch over to $1 and $2 at this point? Your new substr workaround isn't very readable (to me anyway), so it appears that you've lost the one thing you were hoping to gain by using %+.
my $regexp = qr/(\d+)\s+(\d+)/;
next unless /$regexp/;
my $value1 = $1;
my $value2 = $2;
print "GOT $value1 $value2\n";
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