I've had a good look at a few of these archetypes, and I have a few points to make.
1. Negative Qualities. I hate Negative Qualities. A lot of people seem to take them thinking that they're free points. Sure, an optimized character at creation can probably use the points to make sure they have that one important skill at 6, or they can make sure they've got at least one contact. I really don't see the need for every character to max out their negative qualities. Especially on things that a lot of GMs don't know how to incorporate into the game appropriately. This isn't really a critique of your builds, but of the ethereal nature of some of these qualities (SINner and the ones that require Composure tests) really seem to be taken as a means to exploit weak GMs.
2. Securetech PPP System and Form Fitting body armour. I know that any runner worth his salt takes these every time. They're amazing. Why don't we just add these into the basic stats of all runners and let them be on a level playing field. Autoincludes suck.
Negative Qualities give a character plenty of hooks. As both a player and a GM, I love Negative Qualities.
Saying that they're taken as a means to exploit weak GMs is a pretty broad statement. Perhaps people in your group use them like that, but critiquing a build based on such a generalization? That's too far. Many people take Negative Qualities because they want their character to have those Qualities - not for the points, per se, and certainly not because they hope to put one over on the GM.
Specifically citing the Composure Test Negative Qualities - they give an actual mechanic. Those are less vague than many of the Qualities. "Under X circumstance, you're required to make a Composure Check to do Y." That's quite specific, and it would really require a truly pushover GM to avoid them.
As for "auto-includes" - this comes up a lot around here. I don't know if it is a symptom of the prevalence of MMOGs, or what, but nothing says you
have to use something just because it's the most effective or efficient way to do something. There is a lot of wiggle room between a "gimp" character and an utterly maximized character - if you are making build decisions on substance alone, then you are treading into munchkin territory.
There's nothing wrong with trying to make your character as effective as possible, but taking gear/skills/stats/whatever when you don't want it, simply because it's "the best"... that is powergaming. If it's what you want to do, go for it - but it's not a flaw in the design. Some gear is better than others, yes, but that doesn't make it bad. This isn't an environment that requires everything to be equal.
-Jn-
City of Brass Expatriate