Compressed Fuel storage system suffers from a bad entry in the database. It appears it should be ID 26420, as listed in TechSystem, but in ShipDesignComponents, it is 65061, conflicting with Compressed Fuel Storage Tiny. This caused issues in placing the component during ship design when I obtained the tech, and may have been the issue(or part of) here too. Correcting the conflicting IDs in ShipDesignComponents to match their entries in TechSystem resolved all apparent issues when I ran into that.
In my case, placing one of either normal of tiny compressed tanks would place, or remove both together, they were inseparable, apparently because when I asked for item 65061 it matched two items and so I got both.
If the code tried to place item 26420 from ShipDesignComponents, that ID doesn't exist in that section and would result in failure to place the item - no idea if it would complain or silently move on.
Not certain that is what occurred here, but it seems rather likely given it involved an item with conflicting ID entries in the database.
If that one occurs again and is related to the IDs, or you just want to pre-empt the issue going forwards, I can repair that much in the database.