As a new owner, I will share my perspective. The two biggest "things" I see about the Model S and Tesla Motors are:
1 - What some people complain is a lack of thorough evaluation of design decisions and quality control. I am an Engineer by trade and I spend much of my time on problem determination calls and root cause analysis. For us, we often discuss on ways things could be caught earlier and improved in the future. Now, in Tesla's case, most issues people complain about are, IMO, unreasonable for Tesla to catch every time at the factory. For instance, a misaligned pano roof seal. As long as this is not a systemic problem, I don't think any factory should be opening/closing every single sunroof and water testing and air tunnel testing every single sunroof to ensure a perfect seal. Have the process in place to ensure 90%+ of them are in good shape and the Service Centers can address the few that slip through. Design Decisions are a different concern, like the current thread about the center console. There, this leads mostly into #2.
2 - Tesla Motors, as a whole, has a communications clarity/transparity problem. Most of the angst people experience could easily be avoided by more proactive and/or more detailed communications. Take, for example, when the first cars with Next Gen seats were delivered. People found out at delivery that the next gen seats are a due bill item and they will get them later. Not a big deal and getting the car now vs. waiting on seat supply was the right decision. That said, customers probably would have felt much better if they were told prior to showing up for delivery that the seats were backordered and would be a due bill item in an effort to get the car to the customer faster. There are other examples on these forums, but essentially, they boil down to the customer could have had an improved experience if they simply got better communications.
In the end, I do NOT regret my decision of a Tesla in any way, I still love the company, and I would not hesitate to go through the process again. That doesn't mean I would not appreciate if Tesla did better on certain things.