I'm not sure there is much difference in tuning procedures between any engines. The principles are the same. Specifically the older engine design of the L motor will not tolerate a bad tune as well as more developed combustion chambers and dual overhead cam set ups. Most issues with these motors are with detonation and HG failures in the latter cylinders. Timing should be kept conservative unless dyno tuning with knock sensor capability .
You should pay the extra fee to have VEAL available to help self tune. The analyzer does a pretty good job of helping dial in VE tables , but nothing for timing. Veal will even help warm up tables.
As mentioned earlier there is a wealth of info on Hybridz . There is a dedicated Mega Squirt forum to search from.
Chickenman is on this site and many others (Richard Boyk), so maybe you could PM him to see if he is available to help you. He is very familiar with tuning EFI and has a wide range of knowledge with aftermarket ECU's. He helped me get a head start on tuning with MS3 and tutored me on tuning in general. He could look at your tune and pretty much tell you what the car was set up for. He could help you get a more street friendly tune.
I'm cutting my teeth with NA , so it's less likely to implode with a mistake. You don't have that option, so I would advise getting help before making adjustments and hoping for the best.
In general, I am happy with my MS. My car runs very well and performs as well as it did with my triple Mikunis. It's a steep learning curve , but well worth the study