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...I don't know what to say o.o;
...Either the Erins are out of their mind, or they have something planned...and I'm think the first one...
Eh, I'm just really shocked with the whole book...I have no idea what to think about it.
they were never mentioned in the SotC part where the clans were created
I think my nonsense understands your nonsense. Basically, you're saying that Jay's Wing had to come out somewhere, considering he and Jayfeather both went into the tunnels and traveled through time. Obviously he did not just disappear, and he couldn't have become masqueraded as Jayfeather, because some cat would have noticed him and told the real Jayfeather later. Also, Jay's Wing would have reappeared in his own time after he was done. I can come up with only one possible explanation.
I believe that Jay's Wing was originally going to be sent to Jayfeather's time so that he could blunder about going "OMFG I'M BLIND," but somehow he was accidentally sent to an era where he was never reincarnated. I say this because Fallen Leaves hadn't seen any cats since his tribe deserted him until a few mischievous apprentices wandered in. If Jay's Wing had been switched with another cat, that cat would have come through the tunnels.
I think it's most likely that he reappeared around the time of the veeeerrrry beginning of the Clans. A large group of cats were moving away from the lake to the forest when he emerged from the tunnels. Somehow he joined them and stayed a Clan cat for the rest of his life, thus tying just about everything/one together.
Btw, I basically agree with your "the three" theory, Leafy. 8D