If the item you're talking about is the one I'm thinking of, it should be craftable. Technically though, every item in the game is renewable in some way (at the very least with the use of an item you unlock in the final workbench, but usually there's another way as well). Even that other item you're thinking of re-spawns, although it takes a very long time to do so.
Also, even if you lose an item due to a full inventory it should count in the logbook.