Sure and we've seen over-rides before due to misuse of flagging. In this case it seems to me that flagging has been used as a mega-downvote because people don't want a negative story on Shopify, that misuse is bad for the community and silences people who act within the norms and are upvoting articles they want to see. If stories like the below are fine here, I think this story should be fine here.
https://news.ycombinator.com/item?id=9583196
https://news.ycombinator.com/item?id=8032614
https://news.ycombinator.com/item?id=13200455
https://news.ycombinator.com/item?id=14209161
https://news.ycombinator.com/item?id=13806397
https://news.ycombinator.com/item?id=15441429