Regarding the bug "killing McDonough can make Geneva hostile", I experienced this too. I think that it's because Piper attacks the mayor without properly triggering hostilities, so Geneva thinks she's on his side. At least, when I looked at the mayor in VATS he showed as non hostile even though he was shooting me. --18.104.22.168 08:23, November 21, 2015 (UTC)
I experienced the "A bug may occur where Piper and McDonough start shooting at each other after you open the door." bug on the Xbox One. 22.214.171.124 12:57, November 28, 2015 (UTC)
"Geneva Hostile" bug - I thought it occurred because the locked door was marked as owned or whatever and I had been trespassing, I guess. Bug didn't occur when I found the button instead.
Other quest triggersEdit
I triggered this quest by starting The Nuclear Option with Minutemen but before talking to Sturges. Obviously, I had completed Banished from the Institute as well (by killing Ayo in case that's relevant). Not sure if this is worth adding as a different trigger until the exact triggers can be checked in the GECK.
Detailed Walkthrough Edit
I wanted to post this to see if anybody objects. According to an Institute SRB terminal, Alana Secord decided to disavow McDonough as a result of Piper's article. The deadline she gave was two weeks, and we can assume those two weeks were up at the start of In Sheep's Clothing. Does anyone object to adding this detail to the article?