<VV> 64 turbo acceleration issues

[Kurt Guttensohn]

Hey guys,
  I have been fighting with my 64 turbo for a while.  I could take it for a drive, as long as it was one way ending back at home.  
Once I stopped it, I could not get it to start back up.  Seems it would flood.  If I let it sit over night, it started without an issue.
So I just made sure to keep the trips ending back at the house each time.  
I rebuilt the carb thinking this would help.  It didn't.  Same issues as before.
A few months back it actually stalled while I was driving it.  I coasted to a side street and tried to get it started.  No luck, it was flooded.
I got my girlfriend to bring the truck and tow me back home.  
So, I purchased an electric choke and sent the carb off to get it looked at.  They adjusted the choke, fixed the fuel level issue, and added seals to fix the air leaking at the throttle shaft. 
I put the carb back on the carb and could not get it started no matter what.  Ended up being the coil had gone bad.  Replaced the coil and she starts right up. 
With the carb adjustments/fixes, I no longer have gas dripping from the carb at the air filter fitting.
 
Now here is where it gets strange, or stranger, or more strange...
After the car warms up, she tends to bog down on acceleration.  Mostly in 2nd and 3rd around 3000 rpms.  After the first sign of stuttering, if I let my foot off the accelerartor I am ok.  If I keep in the throttle it will stall out.  I was having difficulty starting the car again after the stall, seemed like it was flooding.  So I pulled the cover off the air filer to look inside.  The choke was open, no gas dripping from the inlet.  I tried the ignition again and she started right up.
Coincidence or did the the cover removal have anything to do with it?
So, I am not sure what is causing the bogging down under heavy acceleration.  
Does anyone have any suggestions as things to check or adjust?
Throughout this I have been running with the pertronix thunderbolt coil electric ignition.  It had no issues with bogging down before the flooding issue was fixed.  The new coil is the Crane Thunder Ball ordered from Clarks.
Thanks for listening to me rant, and for any suggestions.