Hey are there other things besides loyalty,base defense, and base level bonus that increase the shipment amount?I noticed in some legions every day the shipments raise higher and higher every shipment.Can anyone tell me the other things that increase the bonus?

It changes from day to day. If you notice when you collect a shipment, it says some random% cut at the top. That's why it always changes.

If someone doesn't claim their reward one day, their unclaimed share gets circulated into the next day's shipment. If a few people don't claim their reward, it can bump it up by a bit.

Base abilities.

Several people may have become loyal. I believe in the mid-high 40s in terms of members is where the base shipment is maximized for each member, so if they have less than that and new members become loyal it would increase the shipment.

Using ability points can boost daily production based on races in the legion for research, trade pacts for artifacts, and mining by the number of miners in your legion.