Yes, that is one of the immersion killers not mentioned in the first message, but it is something awkward right at the start of the game. We learn that mindflayers can die. I have no reason to doubt that they can then be resurrected with a resurrection spell. We also understand that the mindflayers want us to have a tadpole behind our eyeball. And since they are not stupid and know about their own tadpoles, they will understand that dying and resurrecting rids people of the tadpole. So why didn´t they pat us down and confiscate our resurrection scrolls before putting us inside of a pod???
They just put the scroll there for gameplay purposes, I think they expect people just to be happy with them, so there would have been no need for an explanation.
Still, due to the implication of having such a powerful and rare spell in such a large supply, without it making sense or the possibility to use it on key NPCs, is really off-putting.
I mean, Larian is spending tons of time and resources on iterations such as the one in the Grimforge PFH, where the conversations change in the 0,1% chance that the second player is going to steal the powder while player 1 is engaged in the conversation, but is overlooking much more important matters from both a gameplay and roleplaying standpoint like this problem with the resurrection scrolls.
On a side note: how does cenemorphosis change a victim's clothes into mindflayer clothes?
I asked myself the same thing about the clothes in the trailer xD I think was an oversight (we can justify it by saying that that one was a particularly powerful mind flayer who conjured its robe right after the transformation), because the girl turning inside the pod in the nautiloid was naked after her transformation, if I remember correctly.
There are different kinds of transmutation spells which change also the equipment (polymorph, natural form etc.) but I don't think that is the case, probably just an oversight, as I said.