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Yep trailing split is normally negative for the FD engine.  Thats not going to stop it running though.  

Mostly looks ok to me.  I would lower the arming thresholds a bit to the examples below to make it a bit more robust but it looks like it has everything it needs to run.  Possibly plugs are fouled, rotaries can be a bit sensitive when the tune is a fair way out.  Looking at our FD map we have the master fuel at 14ms (has 850primaries) so perhaps drop yours to 12-14 so it doesnt have too much fuel dumping in there.    

 
Make sure you change that timing split table to negatives too.  

It certainly looks closer but there is still something wrong.  
The trigger 2 pattern should show 3 skinny slots every 90degs then a single wide slot in the 4th 90deg spot.  But you also have a weird group of 4 extra teeth just next to the wide slot and trig 1 signal gets a bit messed up at the same time.  
I have seen the Nissan CAS's do weird stuff like this if the voltage supply to them is very low (such as cranking on a flat battery).  So assuming the battery is good you may have to take another look at the CAS power supply.  You can also look at what the battery voltage is dropping to in a PC Link log while cranking to see if that is acceptable or not.  

 
 

On the Supra ECU Inj 8 output and DI2 input have extra hardware attached so cant be used for their normal functions, but everything else is ok.  
Another option you may want to consider is what we call a "bottom board swap", you can return the ecu to link, we will remove the supra board and replace with an RX7 board.  You will have to contact tech support for a cost on that as im a bit out of date on that but it is usually very cost effective - about $300NZD.  Lots less work than rewiring the car.  

What's your load axis currently? 

If you are using MAP you might find its beneficial to switch over to a TPS based load axis at lower load where map is unstable. 

Out of interest do you have any logs you could post up? 

And what kind of intake is on it?

If its a NA engine then yes TP on the fuel table and BAP as the load equation source will be the best option for fueling.  
However that is probably not going to help much, a bridgeport "jerking" is nothing out of the ordinary...  With the new window cut into the combustion chamber this means the intake port never closes, usually the main port is significantly opened up and the exhaust port is raised at the same time, so you have massive overlap, usually coupled with a very low mass flywheel - so the same reason it pulses at idle is the reason it pulses when driving at low RPM.  Even stock engines do the overun surge which is why they had fluid coupling flywheels etc on the luxury models.  
You may be able to tame it a little by running quite retarded ign timing in the RPM range it occurs, but you need to watch EGT as well. 

Hey guys I was wondering if there is anything I can do to address the jerkyness of a bridge Port 13b at the lower RPM and load range for better drivability especially in the cruising around zones