The idea of completely disassembling the VB is a good one. Pieces of blown gasket can get in the vb and make spools stick or not operate in their full range. It can also make getting a VB apart sometimes a PITA too.
Lets talk about replacement options. The 5R55E VB is a troublesome creature. The fact that the EPC and TCC solenoids "modulate" pressures are are constantly "vibrating" as are certain spools directly controlled by them (the forward modulation spool and the TCC modulator spool to be exact) the wear associated is magnified over a more traditional design.
Often these spools and their bores wear excessively such that the fluid leakage around the spool in the bore becomes excessive and that shows up in the operation of the transmission.
Now, at discount a NEW FORD valve body can be had for under $350.
Let's look at a "simple" but complete rebuild of a VB exhibiting modulator spool syndrome (as I like to call it).
Cost of a sleeve kit to repair those bores? (which includes all parts necessary and then some) $125. The entire VB must be stripped to ream the bores to accept the new sleeves. That might take ya an hour the first time, after experience maybe 30 mins. Time to ream? Probably another 30 mins, with some set up to have constant fluid flow over the reamer for best results.
Cost of the reamers to ream the VB to accept those sleeves ? $500.
Now if you really are going to do this right, you should also ream various other bores and sleeve them as well. Cost of sleeve kits for this ? About $100. Reamer sets ? About $300.
Of course to be "stock" we should do the FORD TSB. Cost in parts about $35.
Time to do all this and reassemble? A few hours.
Assume a shop labor rate of $75 per hour.
NOW, do the math. It starts to make NEW look like the smarter choice, much as I hate to say that. I stopped short of buying the $500 reamer set. I have the other reamers and can do the TCC modulator sleeve install, but as for the rest, it didn't make sense other than for my sense of curiosity.
Now this is not to say that EVERY 5R55E VB needs all that attention. Many can just have a shift kit installed and a few sonnax upgrades not requiring maching and do fine. But for an all out, better than new... well.. the parts alone will run ya $200. Ouch.
ps. I KNOW what upgrades SONNAX makes for this VB and the cost of each. THAT is why I am skeptical when someone says they do ALL SONNAX upgrades. The rebuilders out there (Central Valve Bodies and VB Pro) are good companies and I am not denigrating their product. I look at their prices and I am certain they cannot be doing these full upgrades and selling their products at the prices they are. I admit it does appear that VB Pro does SOME upgrades, but I doubt all. Even then, the prices for VB Pro's valve bodies exceeds the price of buying new at discount. (Not to say their rebuilts might be even "better" than new stock.)