There's a big difference between (impotent) nerd rage and crafting antagonistic policies seemingly designed to alienate your core user base.
In the case of the rootkits, those were, in the grand scheme of things, a relatively small matter. They were only distributed on a small number of discs, were relatively simply removed eventually, and didn't have any long-term repercussions. We were rightly outraged, but we also have to admit that the issue never became a large one. It was a black eye, but other than people choosing to take a stand on principle, it didn't really preclude us from purchasing other CDs from Sony.
The Linux removal had longer-term repercussions, but it only affected a very small subset of the audience for the console. Definitely a dick move, but still not something worthy of generating general outrage in the broader community of gamers. We were, again, right in being outraged, but the only users it directly impacted were the extreme minority that were actually making use of Other OS.
In contrast to those, the policies for the Xbox One could be with us for the next 10 years and directly effect the primary audience for the device in an extremely negative fashion. They've created artificial limits on used games (sufficient enough to effectively destroy the market), artificial limits on sharing games, artificial limits on playing single player games (i.e. having to phone home daily), and on top of all that have yet to promise that any of our games (even the single players ones!) will work after the console has reached its end of life and the phone home servers have stopped responding. And all of that is before you even consider the concerns over privacy that now exist since the Kinect 2 has a built-in microphone and is required to be connected in order for the device to turn on or function: concerns which have taken on a whole new meaning in light of the PRISM leak.
The Internet definitely has a short memory, but this seems to be an issue that won't go away unless Microsoft outright changes its policies. The broader gaming community is up in arms over this, as opposed to it just being a geeky issue. As evidence, GameFAQs ran some polls recently which might indicate the current thoughts of gamers, leading up to and after E3.
Before E3 when they asked do you plan to buy a One?, only 5% indicated they would. The next day when they asked the same question of the PS4, about 40% indicated they planned to buy a PS4. So, before E3 the One was clearly out of favor among gamers, but that was to be expected, since MS' debut presentation barely showed any games at all, with them promising that the games would be shown at E3.
Indeed, MS' E3 presentation was very gaming focused and was clearly aimed at addressing the perceived deficiency in games, so, since E3 is one of the most important platforms for reaching the core gamer demographic, we'd assume that the One would see a decent improvement in terms of public perception post-E3. And after E3 GameFAQs had a similar poll to the earlier ones, this time asking about people's plans to pre-order the new consoles. The PS4 went from 40% planning to buy it before E3 to 57% after it, while the One went from 5% before to 7% after. Perhaps even more telling, only 23% of gamers think the One is better than the Wii U, despite the Wii U generally being considered a flop both commercially and among the gaming community.
Again, there's a big difference between angering a handful of people in a niche community and what they're doing here to alienate their primary demographic.