After seeing this thread and recently (3 days ago) installing the lex/550 upgrade into my car also using the factory FPR I decided I would check my Vf's to see how they compared to the OP. My car has about 100 miles on it since the upgrade, but only about 30 miles since I last pulled the EFI fuse to reset the ECU learn function. I also have an innovate wideband to compare how the car's A/f's have changed from stock fuel to the lex upgrade.
Couple points
1) both with the lex/550 and all stock my car idles, and cruises down the hwy with AFR's varying between about 14.1 and 15.4 afr, which I think is just about perfect
2) under boost (4-5 psi+) AFR goes down to 10.6-12 afr based on rpm and throttle position. Above 3-3.5 k afr's are 10.6-11. This is with stock turbo going up to 10-15 psi of boost.
3) the car drives and behaves identically to how it did with the factory components with the Lex/550 upgrade
With all of the above known, I checked my Vf's at idle (lex screw has not been tampered with and is still "sealed"). My idle VF is 5V exactly, however my car runs Af's which I am happy with under all conditions I have tested it in. I measured Vf at ~2500 rpm free revving and it was still 5V. I currently do not have a way to see what VF is during cruise but may get some wires fed through the hood and window to check in the near future. Unfortunately I never checked my vf's with the factory components.
I have an Aeromotive AFPR that I was going to install but had a problem with the braided return line being to close to my wiring so until I get some new AN fittings it is not going to be installed. But after running this way I am very happy with the factory FPR and the A/f's I see so it may be a while until I put in the Aeromotive AFPR. I already have an MKIV denso pump and that will be installed in the next couple of weeks.
To the OP, I would get a wideband to see what your actual a/f's are, I see that is your plan, but I would do it sooner rather than later. With regard to your recent problems, I have no idea what to tell you. I have never had my car exhibit any of your starting symptoms, ever...