Before the restricted change, I could trade the deeds to my managers and they would claim the ships and give me back the deed as soon as I came back onto the ship. (it would kick me off the ship when they claimed it because of the cleared guest list).
After the change, I still held the deeds and they still had management rights. But one night really late when I had them warp me somewhere, somehow between a combination of lag and tiredness I clicked the wrong terminal in the corner when trying to tp off the privateer. (they are next to each other in the corner of the privateers) and ended up claiming the ship since I held the deed.
I Think the reason for is was a two-step thing, that may not be obvious:
Up to say VU 11 or so, when a few people started to abuse "gateway" (previous gateway) gifts, MA started to Think about implementing items that weren't tradeable - and now we see it as the universal ammo for instance. Another item that you would get freely from missions was the MEDKIT (L) at the start of a mission on Rocktropia; I Think MA by the speed of it also changed that item to untradeable, to prevent beginners getting it and then immediately TT it.
Until say 2 years ago, you could freely trade apartment deeds.
Until then, it was no problem with it. However, then, MA started with mayhem instances and competitions, where you looted untradeable (stackable) mission items (ie feffox sacks). To get scores in the competition, you would turn in the sacks to a NPC to get scores added to your mission pointer. Now, the problem was that some people recalled the apartments, and figured out that you indeed were able to trade feffox sacks, by putting them in an apartment and trade the deed. Because of this, I Think MA implemented a block, so you weren't able to claim an apartment that contained untradeable deeds.
Next thing that happened, about a year ago, was that a player got scammed: He bought a furnished apartment, full with items. He checked out the apartment and got the apartment deed in pvp trade. As this was a PVP trade rather than an auction trade, there was no check that apartment was restricted. Now when he tried to claim the apartmet, at the moment full with items, he got a message saying that he wasn't able to claim the apartment, because there was an untradeable item in it (ie MEDKIT(L)). He sent support ticket about it, and Went to work. When he got home after work, he returned to the apartment and saw that it had been emptied. At this Point, I Think MA implemented this block to prevent estate buyers from buying estates that they can't claim.
At the moment, there is no use for that as you can't drop anything (including untradeable items) inside motherships... but imagine it would be a really cool idea if you *could* put unstackable items inside motherships, like furniture.
I should add, I Think you (well your mothership) did provide a good service back then with entropiatransports, for the time it lasted it was good that there was a free(*) way to travel between planets for beginners for instance who doesn't have any good way to pay the COSTs that there usually are to travel in space. It really filled a gap when it was there, to refer beginners who didn't have a single PED but needed to go to Another planet.
(*) Free: Well, there is unfortunately Always the cost of getting from space down to planet.