I wanted to say a sincere thank you to all those who have contributed to this long... thread. I really appreciate the advise, troubleshooting and help I've received. Even if I didn't take your advise, and regretted it later, I appreciate the "told you so's". I sure have regrets.... but maybe my life has more character with it. At the very least learn from mine and take what you will from my experience.
I'm still skeptical that this is the end of my drivetrain issues (knock on wood) given all that I've been through trying to resolve it.
Here is a short condensed summary of what happened. There are a few other side tracks but this is the core of it.
TLDR:
1. Started out looking for a Timken Clutch release bearing P/N.
Conclusion : forget about sourcing your own parts for a kit. If you're buying a clutch replacement kit don't challenge the mfg. warranty on parts.
2. Trans removed in my driveway 1st time. Engine Rebuild pop scare with the crank threads on the rear main side being nearly stripped from the last clutch job. This induced paranoia of checking every bolt hole with a thread cleaner and repair kit.
Conclusion: Threads were saved, have a thread repair/cleaner kit on hand for surprises like this especially if you're doing this in your driveway.
3. Trying to be proactive and thorough about this clutch replacement job and taking care of the seals while its out on the transmission. Input seal and output seal. This is unknown territory opening up the housing and hard to say weather it helped me or hurt me. I'm leaning on hurt me.
Conclusion: Don't touch it if it ain't leaking, especially if its got shims behind it.
(this is a joke, don't do the following) If you're nervous about it spray some flex seal around the perimeter of the input housing, then call Phill Swift and tell him what it works on.
4. Transmission installed for the first time with the Phoenix friction Kevlar single disk clutch, SBC roller bearing flywheel and a SBC adjustable clutch hydro. SBC hydro used since the phoenix friction hydro started leaking while it was on the shelf in my garage for a year. The SBC hydro can be used on stock applications. Rear main seal scare leak that turned out to be oil spilled on the intake shelf taking the exact path a rear main leak would. The single disk is now
grinding and chattering like a dual disk. Then proceed to test, diagnose and question everything without removing the trans.
Conclusion: not definitive
5. Trans pulled for a second time in my driveway. Hot spot found on pressure plate in one area that corresponds to the hot spot in the respective area on the fly wheel and and perimeter of the clutch disk. Phoenix friction is contacted, further testing, diagnosing and measuring is done before it is shipped off to Phoenix Friction for a whooping professional examination revealing, Paraphrased - "Nothing is wrong that we can see with our product, this clutch is too aggressive for your old transmission" I start the warranty return process for a refund.
Conclusion : heed advice about clutch mfg. for your truck; go with the known and don't stick your neck out when you don't have a full service shop. Additionally doing business with a company that deals with fleet and corporate accounts will bite you in the ass on customer service. Phoenix Friction shafts me, no full refund for not using and returning all their components, my SBC flywheel that was damaged from their clutch is not useable nor will they cover the damages their product caused.
6. South bend Dual disk full organic kit installed, Transmission install number two in my driveway. Call a friend over to help and while under the truck trying to stab the transmission in it tips on the Harbor Fright trans jack falling over on his ankle pinning him underneath the assembly. Full stop. Family and friends are called and I take him to urgent care. By a miracle nothing is broken, only bruises. Got him home and on ice. Update on him : He's doing great full recovery, his insurance didn't cover the x-rays because the nearest urgent care we went to was out of network so I covered that 600.00 bill in full. Additional friends are called to now pick up the dropped transmission from underneath the truck and stab it back in before a bad thunder storm rolls in. This was completed but in frustration of lining up threads on a dowel hole were stripped pulling the trans to the adapter plate.
Conclusion: If once you can't succeed in installing a medium duty transmission in your driveway stop and consider what's at risk and what it's really worth.
7. Shifting issues ensue on the new South Bend Dual Disk Clutch. But no noise or un accounted for chatter like the Phoenix friction single disk. Down shifting into 4th and 3rd grinding and not going in. Popping and plucking rolling into 1st 2nd and Reverse. South Bend called and notified about this issue. Beginning to question and test everything: Short Shifter, Hydro, Bleeding a pre-bleed hydro. Nothing is found to not be functioning as designed. Truck is taken to a SBC installer and dealer MB Diesel Performance of Gold Hill NC. They put about a 100 miles on it and can't feel or notice any thing significant until the day I pick it up and test drive it and it does everything I said it was doing. Truck gets back and hypothesizing begins on the only element of the drive train that's not been looked at the transmission.
The hypothesis : A dual disk clutch assembly with its additional weight and moving parts puts more load and stress on a higher mileage transmission synchro's
causing it to shift harshly or not at all. Plans are made for a rebuild at STG in Fort Worth TX, Different shop is used to remove and replace the transmission.
Conclusion: Do your research on local diesel shops and ask around. If a shop has more experience with automatics don't rely on their diagnostics for a manual transmission.
8. Truck dropped off in better hands at Pure Diesel of Kernersville, NC. Trans is pulled,
(Clutch inspected, nothing of note, everything was assembled as it should have been no hot spots or wear, this confirms a mfg. defect on Phoenix Frictions clutch kit) shipped to Texas, Rebuilt, Shipped back, installed and driven home.
Conclusion: Currently pending, but promising.