There are several things that come to mind that Shepard does throughout the trilogy which bother me.
1. Shepard surrenders to political BS to sit uselessly in prison after ME2 despite the knowledge that the reapers are coming. Unlike Shepard, Liara and Garrus do everything in their power to prepare the galaxy for their arrival.
2. Shepard is indifferent to the Alliance in ME3 to the above mentioned political BS; especially regarding Hackett who asked for the Arrival favor and rewarded Shepard by tipping off the batarians about Shepard's involvement.
3. Shepard is fine with Miranda wanting to turn him/her into a Cerberus slave.
4. Shepard shows no ill will at all for Joker being an idiot at the beginning of ME2. Granted, Shepard was an idiot too for endangering himself/herself to tell Joker what he already knew but that's what heroes do.
5. Shepard shows no gratitude to Feron at all. He sacrificed himself to 2 years of torture for Liara and Shepard's corpse; neither of which he really knew. Yet he doesn't get so much as a "thank you."
6. A little one: Shepard orders the team to drop their weapons when Brooks is held hostage. Seriously, WTF?!
Which things in the series bother you most?
1. agree
2. agree
3. agree, although that's not my pet peeve. My Shepard tells her that he's not a puppet. I wouldn't have wanted to kill her or something.
4. agree. i would like to think my Shepard would have left him...but i have a bit of a soft spot for the moron.
5. Didn't happen in my canon. But I don't think any Shepard with LOTSB as canon should have to thank feron considering everything s/he went through to save him.
6. agree. I knew she was sneaky long before then but BW just had to make Shepard gullible and unable to tell when someone is playing him even if it's a Shepard who grew up on the streets.
I'll add my own
7. The Temper tantrum over Thessia
8. Not romancing Kaidan as a man in ME1
9. Not telling Liara she couldn't come to Thessia
10. Hugging Liara longingly.