Short-legged Canines Mesh help?

[KikiDelivery]

Basically, I've created a mesh for a pug, I found the legs of the Dog race's skeleton very tall, so I moved a few bones in 3DS Max in order to fit the pug's figure and I can easily skin my mesh.

 

So far so good, Import is successful and shows up correctly in CK, however when I apply the mesh to my dog companion mod via Actors, it becomes a weird looking figure, I suspect because it is using the Dog race's skeletons it reverts to the long legged skeleton.

 

I've done a few armor mods in the past, but its my first time making mods for Non-Humanoids, I might have missed out on an important procedure or something. How would I go about having my pug mesh showing up correctly? Any help is greatly appreciated.

 

 

[KikiDelivery]

UPDATE: I finally got it to show up the way I want to by using the Sabrecat skeleton and some slight adjustments.

 

But there's a new problem when I look at the dog from a distance, compared to when I look closer ingame there's clipping (see the attached pictures), is there any reason this is happening?   

 

Same pose, different angles, close up

  

 

 

Same pose, different angle and from a distance, See his ear?