Mine never seemed to mind root work at the appropriate time, had it in a fairly shallow pot for 10 plus years.
If your picture is current they seem to be an acceptable time for root work, however I'm not aware of your climate/USDA zone
If they are nursery stock which appears to be the case, the taproot situation is irrelevant, it only pertains to wild collected material.
I had a large specimen for years, very easy to care for except our climate occasionally got way too cold and I didn't protect it adequately.
No peanuts, bed of closed cel foam, sides same, 1" thick foam, foam insert in large pot and foam spacers hot glued to secure small pots from moving at all, then topped with another sheet of 1" foam.
Crazy attention to detail.
I love ginko too, but after seeing pix of most of the trees there were plenty of better deciduous trees, like the clump style JM or the Informal upright Korean hornbeam, IMO.
Agreed, if brown and withered not providing the tree with anything, I also have heard the leaves remain in place to protect new buds, definitely wouldn't pull the leaves, could damage buds, if they bother you, best to cut as dbonsaiw said.
If you put your location and climate info in your profile you will get better and more appropriate advice.
Most folks will say Chinese Elm should be grown outside, myself included, however some people are successful growing them indoors.
No reason not to trim if it is actively growing.