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First thank you folks for the suggestions. After using Vim panes for a day, I can say this:

Vim panes vs vim instances in tmux, who wins? It depends on the use case. In case you want to edit files that are completely independent of each other and you prefer not sharing registers between these files, then you are better of using tmux panes; however if the use case involves similar files and involves lot of copy pasting between the 2 buffers, then it is very much recommended that you use Vim panes as the sharing of registers proves its worth in this use case.

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