1. The "triple helix" stuff was pure, unadulterated crap. DNA will not fold into a triple helix. It's right up there with movie "science" like claiming an alien element was found that's not the on the periodic table.
And the second problem with it is that, if you want human cells to be able to do anything with this triple-helix... stuff... you'll have to change virtually everything about the cell - on the spot. Otherwise you end up with a cell containing a lot of alien genetic material it can't do anything with. Enzymatic reactions involved in transcribing it won't work, there's no system set up to make messenger RNA and proteins out of the triple-stranded DNA, there are no structures available to recognize those protein products even if by some miracle they did get made in the first place...
It's awful, awful science - I'd have had no problem if they simply made what the aliens were doing ambiguous, but they decided to thrust it center stage, and it stinks.
2. Many scientifc fields do overlap, but the amount of cross-training scientists appear to magically have in most sci-fi shows is absurdly unrealistic, and in this show, it's worse than ever. And frankly, I think a larger cast would have been nice.
I'm also really unimpressed by the fact this group of geniuses has barely been able to articulate the implications of something being able to move in more than three dimensions, and continued to be surprised by things and people disappearing into thin air. I realize it's the writers trying to save it for a big plot point later on when they figure out more about the alien technology, but the idea that several people with advanced math background are so fuzzy about it is just funny. It's about as mysterious as one of us being able to step out of a chalk circle drawn on the ground.
3. Saying the team leader didn't do anything important isn't being mean... Most of her input amounted to having the deputy-director come to her and say "what do we do next" and having her reply "well, the list says we do X now". Oh, and I guess she did repeatedly go toe-to-toe with the alien-infested first mate after he managed to knock Cavanaugh (poor guy - what a miserable role so far) out of commission, but I'd have preferred it if the writers put more work into showing us why she's being billed as a genius.
4. Three team members were sitting in a van, alone, and the security was lax enough that the alien-infected guy showed up and pulled one of them out of a window and dragged him away. What good is lojack if someone has minutes to kill you before the security gets to you? And I guess bullet-proof glass and a couple of armed guys with them in the van would have been too much to ask for, right?