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Is this a query?
(only stuff recorded in the log book, every type of creature and anything that shows up red instead of orange in scan mode)
Creatures respawn when you move futher than two rooms away.
Well if it's a red box, it must be scanned.
Orange boxes don't count.
And you need to scan each creature once, there are some that only appear once as well so you must get them.
For example, I imagine you have missed scanning the Hive Mecha?
If you already have the missiles and it isn't in your log book, you can't get it.
But you need to scan pretty much everything anyway, as some stuff is hidden, eg, Pirate Data, most of the Orange screen thingy's in the Phendrana Base give you useless information, but some give you SPace Pirate Data.