Scene Loading occasionally breaks Rigid Bodies...

Hello, I've been working on a 2D unity project for IOS for a little while now. Everything seems to be working as intended about 95% of the time, however I've discovered that if I go from one scene to another and back that basically all of the physics related things (rigid body2D, box collider2D) do not work properly. The colliders aren't recognized properly and sometimes seemingly randomly and certain movement which used to be nice and smooth is now choppy and broken...

I'm not sure what code to post because the project has become quite complicated with many different scripts and I cant really narrow the problem down to a piece of code, as the console throws no errors whatsoever when the issue occurs.. The most I've managed to narrow it down to is the physics issues, as when inspecting the broken scene, all of the issues revolve around either a rigidbody2D or a boxcollider2D. I've also managed to get it to where I can replicate it every time by doing a sequence of going from:

1. scene A to scene B,

2. scene B to scene C,

3. scene C to scene A,

4. Scene A to B,

5. and then finally B to D (D being the actual game playing scene, where things break).

But I've also found if I Go directly from:

1. Scene A to C

2. then C to A,

3. A to B,

4. and B to D, it works fine.

I know this is a long shot, but I've been stuck on this for quite a while and I'm not sure where to turn. Maybe if nothing else someone might have some tips for troubleshooting a problem when you're getting no errors in the console from code...?

Thanks in advance!