One must assume the transporters on the 1701 operate in the same fashion. Unbeknownst to our heroes, Simon van Gelder is hiding in the containers meant for the Bureau of Penology beamed up from Tantalus on the cargo transporter. It seems to me he's lucky not to have materialized as 90 kilograms of wet hamburger.
Nah, its the same reason we don't need to assume that the 1701's phasers are limited to sublight combat. They're different continuities with different tech trees