Hmm... I thought he had a krabby. What level was his breloom? It should be something like, 9 or so. The cave, yeah, sure. It's not supposed to be there so don't worry about it.
The new one is completely different! Yeah, you'll have to get all the badges, except maybe Hoenn, because I won't have room for the maps...
That... Happens to me sometimes. Hopefully It's just the save in the rom, and if you clear all data before playing you shouldn't have that problem. Up+select+b
...You could possibly watch a video if you need help? I have a few, and I'm sure other people will upload them... But if you want to know:
Oooh! It's very nice! I never understood how to make moving pictures... Anyways, thanks! I'll add it to the slowly growing pile! Oh, but I think you forgot the hoenn Pokes.