Just used the basic "load all" for Wulfir's WW2 Paratroopers in the Pacific campaign after botching the 11th battle. Got so engrossed on loading manually, then plotting with the AO, forgot to load him in the transport
! So even though Corregidor got captured in decisive fashion the campaign was ended prematurely as the Old Man got left behind and drowned. But it's such an engrossing campaign thought I'd go back to the "human deploy" save I had for another go.
Anyway it's not much different from doing it the hard way. The units get loaded in order (AO through T2 in my case) into the nearest air transports, also in order. All you gotta do is check in the Airborne Screen to see which guys are loaded where-platoons are usually in the same or adjacent planes--and plot them according. And don't forget to load your AO (or AOP team if you bought one) before pressing the "quit deploy" button
!