Well, yes, of course they were created before the game was saved. How the heck would they be saved if you created them AFTER the save point. Odd question.
Since I long ago maxed out all research and designed final versions of my ships I have had no cause for new designs for several hundred turns. I have noticed that the days roll by (real time days) that I have fewer and fewer ship designs each day when I re-boot and open the ship designer. A week or two ago I had perhaps 15 or 16 designs. Now I have 5. All of the cruisers, destroyers and battlecruisers I designed are no longer in the ships designer, though my shipyards are still cranking them out.
I am on turn 1236 in an insane galaxy. I have only had one crash, which seemed to be sound related, so I turned off the music. I am running under WIn7, i7-4770, 16 gigs RAM and an Nvidea-970 (4 gigs). So the game runs pretty quickly.
Apparently the game save has a bug in it.