When I took my first trade guild mission after the latest patch and went through a wormhole, it failed to complete loading and I had to log off. When I logged back in, the timer had disappeared. Shouldn't the timer come back when you relog? Thanks.

Also, I seem to have been getting these crashes more and more often recently. I would warp through a wormhole and it would load like normal, but the bar would just stay full and sector would never load. The game doesn't actually freeze because I can still send chats. Is this a known bug, or a server-side problem?

The mission doesn't resend the mission timer when you log off or crash at this time, unfortunately.
I think the sector not loading is a server-side problem.

The next version will restart the timer when you log in and the mission is still going. I also noticed that the timer doesn't go away when you abort the mission - that's been fixed too.

Are all the bulk trade guild missions timed?
I did one last night and it timed it fine, but the second time I took one, it gave me no time limit.

If they aren't all timed, perhaps the mission description should reflect that.