It might relate to the differences we see with the Rainbow Ponies and their symbols?
My Baby Zitroenchen has the small symbols, and she came from Locket, who found her in Austria. My Nachtlicht and Regentropfen also came from Austria and also have smaller symbols.
I don't know if it's been totally proven that the large symbol comes from Germany and the small one other places (Austria being key in my mind) but this might be a further suggestion of it?
Unless, of course, both the OP's Baby Zitroenchen's came from the same country. In which case, no clue.
The German advert booklet for this set is no help as the Zitroenchen it shows is the UK version >.>
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loginThere are variations on symbol for the UK BLD as well, but those are colour rather than size...