This is where the problem of QS' unsporting actions in the past comes back to bite them, though. It seems pretty unlikely that a team or rider would do something like that, but then we have seen them break rules to gain advantage in recent memory with Lampaert and Wellens, and we have seen (non-QS) riders pretending to have been involved in crashes in the last 3k to get the same time before. We remember Sky taking the time penalties of illegal feeds deliberately to avoid the hunger knock when their leader was distanced on a final climb. And hell, to jump to a different sport, I thought it pretty unlikely that any motor racing team would deliberately tell a driver to crash into a wall at F1 speed, but it happened.
It's all conspiracy theory villainy, but because of the timing of it and because QS have that negative reputation for their behaviour in defence of a lead, people are more willing to believe conspiracy theories about their villainy than if it was a team with an unblemished reputation - even if in some cases only because they want to believe that their guy would have won if he hadn't been screwed over.