Getting "back in shape" after C1 Explosion

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I have a DIYPNP with a v2.2 Microsquirt Module and am in the process of turbocharging a 96 Miata. I first started with the module on the base miata pre-turbo and the car drove nicely. Then, as I attempted to start the car after my turbo install, my C1 exploded and took some trace with it (the trace that goes from the positive end of C1 to the square peg of U5 voltage regulator).

I replaced the capacitors (c1 and c2) with 35 v versions: http://www.digikey.com/product-search/e ... =search_go, reloaded 331a firmware, and the car would not start. From the composite log, i did not get any signal from the VREF on the CAM. Manually, using a multimeter on VREF, I found out that the signal was going from 0-50MV instead of 0-5V.

https://www.dropbox.com/s/iqt7zr16dwc12 ... e.PNG?dl=0

When checking on the DIYPNP while probing GND with - and 5V power with + (not vref) I am also getting 50mV instead of 5V. This leads me to suspect that something else other than C1 and the trace was damaged as a part of the over-voltage explosion.

How can I diagnose U5? When doing simple connectivity testing from + on C1 to diodes near U5 and pins on U5, connectivity changes when plugging in and unplugging a 12V bench power supply. I know the narrative is a bit simplistic but does this adequately suggest that U5 is "working" when power is supplied?

What else could be happening that I'm not getting 5v?

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A little more information on this, I am using the 1.5b DIYPNP board and have used jumpers and pullups here: http://www.diyautotune.com/diypnp/apps/ ... bp-mt.html

I am using the attached base tune for a 9697 NA and intend to modify fuel maps and ignition tables post start.

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To follow up on this - I worked with Matt Cramer who suggested that I test out the cam sensor. I left the cam sensor on the car and rotated the crank nose at 22.5-ish degree increments. The signals were such that the one of the pulse signals was registering 50mv instead of 5v. This ended up being caused by a short in the U5 voltage regulator (thermal grease). After removing the grease the car started right up.