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I would first replace the missing bolts and put everything back together and start testing the injection pump before condemning it for replacement
Install a piece of clear fuel line on the return side of the Injection pump to help locate any air in fuel issues, as shown in this link:
Hello, Last year I purchased a 1999 GMC 6.5l TD Bluebird school bus, converted it to an RV, got RV plates, insurance, all that, my blog on the conversion is weboughtaschoolbus.blogspot.com if you are interested in seeing that. Now on to engine issues. I had some stalling happen 3 or 4...
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There should be no air bubbles within the line while the truck is running.
Once you get it all bolted back up perform a KOKO procedure to bring the pump in the ballpark for TDCO, as shown in this link:
Question: - 1997 6.5 TD
Next, you'll need to verify TDCO with the correct timing software. If you can get your hands on a Tech 2 that would be great.
If not, then you'll need the
Car Code,
AutoEnginuity PC software and cable or
AUTEL® MaxiDAS®, available on the net, all three service GM.
All 3 are very user-friendly, does everything the TECH2 does for engine and transmission test and control. All three connect to the USB port on a laptop computer.