Duplicating directory structures on different machines

I'm trying to mirror directory structures on two different machines.
Namely so that Premiere project files can be shared withotu having to relink the media paths.
Machine A has 2 Volumes: /Volumes/System/ (startup disk) and /Volumes/Media/
Machine B has 1 volume: /Volumes/Media/
Maybe you see the problem already.
On Machine A the true path to a file on Media would be: /Volumes/Media/filename
On Machine B the true path to a file on Media would be : /filename
I take it this is so, because Machine B's 'Media' is the startup disk, whereas Machine A's startup disk is 'System'.
So on Machine B,  /Volumes/Media is a link to /. (ie: Media -> /)
Therefore whenever an absoulte path is saved in the premiere file, they are different. Machine A will always be looking in /Volumes/Media/ and Machine B will also be looking in /Media/.
Any ideas on how to make this work? Many thanks for any help.
C

Ok, I think I understand what you are saying. To be clear, I'm not dumping a ton on files in /, I was just being too brief in my example.
I'm thinking the best quick solution for this would be to put the folder inside of /Users/Shared/FolderName/
That way it is not username dependant, and should work no matter the number of drives installed or the names.
Ideally I would like these files to live on the non-startup/system disk (for the machine that has it), but I think this will do for now.

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