Might be a long shot but I had an EFI Ford years ago doing a similar thing and the diaphragm in the fuel pressure regulator had a hole in it and it was sucking fuel straight into the manifold.
Could be something as simple as that. Just pull the hose of the regulator and get a longer piece of hose and give it a suck. If you get a mouthful of fuel that will be your issue.
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