Great questions Ed! I never thought of sticking them in the end! I got into these to grow strawberries and of course could not resist :)
I did fine storing the ones I started last year with the others, packed together and stacked 3 high (although that will only work well with single leaders the way I planted them). I plan to try winterizing some in the field this year by tipping them on their sides and pinning the tops flat to the ground and then covering with several layers of agribon and maybe black ground cover over that, will probably try burying some with soil and leaves also. If the trunks were all on one end that might be really helpful to pack them, you could stack them at least 4 high I think.
The landscape fabric I've been using lasts anywhere from one year to 3 or more (basing this on fabric containers I made), mulching will extend the life of the material by blocking the sun. The mesh tubes used on construction sites could be even more durable I think, since the strands are much thicker.
My plan so far for repotting is to set out a larger section of unsewn fabric and then put a layer of compost thick enough to fill the extra space. I will set the tree with the old sock removed in the middle of the rectangle and then roll it over on its side so the edge of the fabric can be pulled up and secured, then, keeping tension on the fabric and pressure on the compost, roll it over to the other side, then top it off and join the sides somehow, stuff the ends and tie them. I'm sure it won't be pretty. I have one seedling sock that split the seam on the side, the roots have grabbed all of the compost really well though so it has been doing fine and I have been putting it off... I think you could do the same if it were coming out the end, no way I can think of to get either into an intact tube though.
I was surprised that the seedlings did not root through the fabric much last year, just very fine roots when on black ground cover, this year I also set some on solid plastic, another layer of landscape fabric, and some just on the soil so I should have a better idea of what they will do. I don't think the mesh tubes will prune the roots at all because the openings are too wide, they will probably run right into the ground and get big, unless therI think, some aggressive weed roots can actually invade them also.
Because there is much more surface area exposed to air they do dry out much faster than a container of comparable volume. But, they catch rain better. The new cuttings were getting a little water daily through the heat wave and they seemed to like it. I lost a bunch of plants in small containers when the power/exhaust fan went out last Sunday morning and I didn't get there to water until after noon, these guys made it through fine though.
Aside from any training I don't think you will need to stake them, they can only tip over to the front or back, not to the sides, any direction the wind blows on a regular container could tip it though, they also flatten out quite a bit and the roots eventually grab.