Oh, I get it now! No wonder I also couldn't find them in A-map!
The Totodile and "secret Pokemon" are a great idea. One thought though. Instead of letting the player get all of the Johto region starters, have you considered staggering it (so like one from Kanto, one from Johto, one from Hoenn)? I guess it really doesn't make too much of a difference, and I love Feraligatr anyway. Also, will there be some sort of event where Cyndaquil 'smells' the other Cyndaquils in a Knox base? Like a rescue mission type thing?
Although if the plot get's any deeper, I'll drown.
Incredible job, cooley, keep it up. Maybe if we all sign a petition we can get Nintendo to hand over the rights to you...
By the way, what was the inspiration for "Sprash" attack?