The third link you listed is Dynamic Transmission out of Newman Lake, Washington. He's a one man shop that offers Goerend torque converters with his builds and an expert 48re builder. You can send him your transmission and he'll rebuild it. There won't be much oem left when he's done.
I've have one of his transmissions and recommend him without reservation. Call Jon directly and discuss what you want and your timeline. He's straight-forward, dependable and honest, and he worked with me to get things just right. I do have the advantage of being within a few hours of him, full disclosure.
I haul hay, animals, construction materials and run around a little over max GVWR with my truck camper. Jon built a solid transmission that shifts smoothly. The others I drove slammed into gear with the exception of Goerend and Suncoast. I didn't want that. I chose local and have been glad I did.
As you mentioned, be mindful of who you trust to install it. The trans cooler, heat exchanger, and all lines need to be properly flushed or it will cook a replacement trans. Not all shops have the equipment or knowledge to do this. Not all shops know it needs to be done.
Also, if you get one of Jon's transmissions, be aware he recommends using DEXIII instead of ATF+4. This requires a drain and fill of the transfer case with DEXIII as well. Don't skip that part of you decide to go that route. It works great and I have no complaints. I now service my transmission and transfer case every 10k miles. I feel it's cheap insurance after spending so much on a rebuild.
Good luck with your decision!