I seem to be having troubles transferring Marines between ships in deep space (at a waypoint).
1) (Primary): I managed to tell my TG with a battalion-sized assault shuttle to load a battalion from my TG with a battalion size troop bay (huzzah!

) then gave it a 5-second update to see what happened. It claimed to have completed the order (which I thought was weird, since it should take a long time), but when I looked at the TG, it still had a "Combat load Marines 07th from Fleet 1st Invasion 01" order in plotted moves, which it thought had 9 hours and 36 minutes to go. I hit the 1-day advance button, and got another "orders completed" message 30 minutes later (at the end of the 1st sub-pulse). I did it again, and the same thing happened. I also noticed that the 9:36 time remaining isn't going down, so this is technically a hang. I fixed it by simply deleting the order, but it's still a problem.
The rest are more suggestions, than bugs, but since I'm here....
2) It took me a while to figure out how to transfer the troops - there seems to be only one configuration that works (assault shuttle and transport in different TG, assault shuttle's TG selected with a load-from order targeting the transport). A few things that should probably work but don't:
A) In addition to the "load-from" there's a "load-within", but it doesn't appear when I select the troop transport's TG and target the assault shuttle's. I didn't try unchecking the order filtering box, but this should probably show up for any TG with TT bays and/or battalions loaded. Also, the wording for these two orders is somewhat confusing - it's not clear which fleet is being talked about.
B) I originally tried putting both assault shuttle and transport in the same TG, but when I tried to view TG as targets for that TG, it looks like it was being filtered out. So I don't think there's a way to load drop bays from troop bays within the same TG.
C) Ditto for loading within the same ship - I was thinking of putting drop bays into my transport, but couldn't figure out how they could be loaded.
D) I don't think there's any way to choose which drop bay is loaded if there are multiple ships with drop bays available in the TG.
Given all the above (especially the last), it doesn't feel like the the troop transfer interface really belongs on the orders screen. How about this for an idea - do it through the F6 screen on a ship-by-ship basis (which is where it used to be, IIRC), except set a "transferring troops" state on any ships participating in a transfer. This state would be similar to the overhaul state - it would immobilize the ships' TG, and include an "expiration date" in the DB for when the loading was complete. So the F12 display would show ships which were transferring troops as e.g. "Napoleon (loading troops, 6:32 remaining)" in the same way ships show an overhaul state on that screen.
John