Here's an example of the animation running in-game using the JavaScript library.

Here's the same animation when re-imported in Spine using Import Data:

As you can see the red jello body is missing although it has been imported as an image:

The reason I think it has to do with scaling is because I have another animation where the elements are not completely gone but have somehow lost their scaling settings. (I'm not the creator of these and just a programmer that wants to use these assets. So I'm not entirely sure what is going on)

Here's another example in-game:

Here's the same animation imported back into Spine:

As you can see the arm, hands, hat, and eyes are way too small compared to the in-game animation.

Here's a better look at the setup in Spine:

Since I'm manually extracting the images from the packed png and getting the rotation, coordinates from the atlas I could potentially do some modifications to the JSON in the process if I knew what and where. I'm thinking there are some scaling settings the player code takes for granted but the Spine app doesn't when importing the JSON?

Any help is greatly appreciated.
Thanks.